DQ572138
 

Information on mRNA DQ572138

Description: Homo sapiens piRNA piR-40250, complete sequence.
Gene: n/a
Product: n/a
Author: Girard,A., Sachidanandam,R., Hannon,G.J. and Carmell,M.A.
Organism: Homo sapiens
Tissue: n/a
Development stage: n/a
Cell line: n/a
Sex: n/a
Library: n/a
Clone: n/a
CDS: n/a
Date: 2008-11-02
Version: 1
mRNA sequence: DQ572138
Position: chr17:77111562-77111589

mRNA/Genomic Alignments

The alignment you clicked on is first in the table below.
BROWSER | SIZE IDENTITY CHROMOSOME  STRAND    START     END              QUERY      START  END  TOTAL
-----------------------------------------------------------------------------------------------------
browser |    28  100.0%         17     -  77111562  77111589              DQ572138     2    29    29
browser |    28  100.0%          1     +  24891844  24891871              DQ572138     2    29    29
browser |    28  100.0%          1     +  54165128  54165155              DQ572138     2    29    29
browser |    28  100.0%          1     +  56847262  56847289              DQ572138     2    29    29
browser |    28  100.0%          1     +  60965148  60965175              DQ572138     2    29    29
browser |    28  100.0%          1     +  71172227  71172254              DQ572138     2    29    29
browser |    28  100.0%          1     +  72147879  72147906              DQ572138     2    29    29
browser |    28  100.0%          1     -  73062377  73062404              DQ572138     2    29    29
browser |    27  100.0%          1     -  78740185  78740211              DQ572138     2    28    29
browser |    26  100.0%          1     -  79165949  79165974              DQ572138     2    27    29
browser |    28  100.0%          1     -  83032590  83032617              DQ572138     2    29    29
browser |    28  100.0%          1     +  85007689  85007716              DQ572138     2    29    29
browser |    28  100.0%          1     +  93242865  93242892              DQ572138     2    29    29
browser |    27  100.0%          1     +  98361628  98361654              DQ572138     1    27    29
browser |    28  100.0%          1     - 105932393 105932420              DQ572138     2    29    29
browser |    26  100.0%          1     - 111034715 111034740              DQ572138     2    27    29
browser |    28  100.0%          1     - 118239555 118239582              DQ572138     2    29    29
browser |    28  100.0%          1     + 119376326 119376353              DQ572138     2    29    29
browser |    28  100.0%          1     + 121472861 121472888              DQ572138     2    29    29
browser |    28  100.0%          1     + 157439756 157439783              DQ572138     1    28    29
browser |    28  100.0%          1     - 158224154 158224181              DQ572138     2    29    29
browser |    28  100.0%          1     - 159418865 159418892              DQ572138     2    29    29
browser |    27  100.0%          1     - 160922397 160922423              DQ572138     2    28    29
browser |    27  100.0%          1     + 163227928 163227954              DQ572138     2    28    29
browser |    28  100.0%          1     + 169758154 169758181              DQ572138     2    29    29
browser |    28  100.0%          1     - 170207981 170208008              DQ572138     2    29    29
browser |    29  100.0%          1     + 174600659 174600687              DQ572138     1    29    29
browser |    26  100.0%          1     - 175984744 175984769              DQ572138     4    29    29
browser |    28  100.0%          1     - 215493004 215493031              DQ572138     2    29    29
browser |    28  100.0%         10     -  44215678  44215705              DQ572138     2    29    29
browser |    28  100.0%         10     +  52581280  52581307              DQ572138     2    29    29
browser |    28  100.0%         10     +  56518810  56518837              DQ572138     2    29    29
browser |    28  100.0%         10     +  81238762  81238791              DQ572138     2    29    29
browser |    28  100.0%         10     -  88326871  88326898              DQ572138     2    29    29
browser |    28  100.0%         10     - 118490489 118490516              DQ572138     2    29    29
browser |    27  100.0%         11     -   9189947   9189973              DQ572138     3    29    29
browser |    28  100.0%         11     -  15017883  15017910              DQ572138     2    29    29
browser |    28  100.0%         11     +  18201186  18201213              DQ572138     2    29    29
browser |    27  100.0%         11     -  21916379  21916405              DQ572138     2    28    29
browser |    28  100.0%         11     -  28316242  28316269              DQ572138     2    29    29
browser |    27  100.0%         11     -  29057222  29057248              DQ572138     2    28    29
browser |    29  100.0%         11     +  31493878  31493906              DQ572138     1    29    29
browser |    28  100.0%         11     -  36522785  36522812              DQ572138     2    29    29
browser |    27  100.0%         11     +  36981746  36981772              DQ572138     3    29    29
browser |    28  100.0%         11     +  55495923  55495950              DQ572138     2    29    29
browser |    28  100.0%         11     -  59132130  59132157              DQ572138     2    29    29
browser |    28  100.0%         11     -  82878006  82878033              DQ572138     2    29    29
browser |    27  100.0%         11     + 101317167 101317193              DQ572138     2    28    29
browser |    28  100.0%         11     - 101708247 101708274              DQ572138     2    29    29
browser |    26  100.0%         11     - 127298488 127298513              DQ572138     2    27    29
browser |    28  100.0%         12     +  10537381  10537408              DQ572138     2    29    29
browser |    28  100.0%         12     -  21327559  21327586              DQ572138     2    29    29
browser |    28  100.0%         12     -  55652028  55652055              DQ572138     2    29    29
browser |    28  100.0%         12     +  60739796  60739823              DQ572138     2    29    29
browser |    28  100.0%         12     +  61898108  61898135              DQ572138     2    29    29
browser |    29  100.0%         12     +  68442702  68442730              DQ572138     1    29    29
browser |    28  100.0%         12     +  72070658  72070685              DQ572138     2    29    29
browser |    28  100.0%         12     -  81835490  81835517              DQ572138     2    29    29
browser |    28  100.0%         12     +  82069558  82069585              DQ572138     2    29    29
browser |    28  100.0%         12     -  82147472  82147499              DQ572138     2    29    29
browser |    28  100.0%         12     +  85478884  85478911              DQ572138     2    29    29
browser |    26  100.0%         12     +  97661402  97661427              DQ572138     2    27    29
browser |    27  100.0%         12     + 102997847 102997873              DQ572138     3    29    29
browser |    28  100.0%         12     + 103836730 103836757              DQ572138     2    29    29
browser |    27  100.0%         13     +  21954788  21954814              DQ572138     1    27    29
browser |    29  100.0%         13     -  31355714  31355742              DQ572138     1    29    29
browser |    28  100.0%         13     -  48216956  48216983              DQ572138     2    29    29
browser |    27  100.0%         13     -  48756301  48756327              DQ572138     3    29    29
browser |    28  100.0%         13     +  55891118  55891145              DQ572138     2    29    29
browser |    28  100.0%         13     -  60409510  60409537              DQ572138     2    29    29
browser |    27  100.0%         13     +  60980854  60980880              DQ572138     2    28    29
browser |    28  100.0%         13     +  62876896  62876923              DQ572138     2    29    29
browser |    28  100.0%         13     +  65558820  65558847              DQ572138     2    29    29
browser |    26  100.0%         13     -  70718540  70718565              DQ572138     2    27    29
browser |    29  100.0%         13     +  71062130  71062158              DQ572138     1    29    29
browser |    28  100.0%         13     -  76124879  76124906              DQ572138     2    29    29
browser |    27  100.0%         13     -  83073114  83073140              DQ572138     2    28    29
browser |    28  100.0%         13     -  83343350  83343377              DQ572138     2    29    29
browser |    28  100.0%         13     +  91917309  91917336              DQ572138     2    29    29
browser |    28  100.0%         13     +  92164490  92164517              DQ572138     2    29    29
browser |    28  100.0%         13     +  95459086  95459113              DQ572138     2    29    29
browser |    28  100.0%         13     - 102782309 102782336              DQ572138     2    29    29
browser |    28  100.0%         13     - 108001874 108001901              DQ572138     2    29    29
browser |    28  100.0%         14     +  20665090  20665117              DQ572138     2    29    29
browser |    28  100.0%         14     +  40155967  40155994              DQ572138     2    29    29
browser |    28  100.0%         14     +  40959249  40959276              DQ572138     2    29    29
browser |    26  100.0%         14     +  50693929  50693954              DQ572138     2    27    29
browser |    28  100.0%         14     +  58929799  58929826              DQ572138     2    29    29
browser |    26  100.0%         14     +  69477738  69477763              DQ572138     2    27    29
browser |    28  100.0%         14     -  70264592  70264619              DQ572138     2    29    29
browser |    28  100.0%         14     -  83930183  83930210              DQ572138     2    29    29
browser |    28  100.0%         14     -  86373140  86373167              DQ572138     2    29    29
browser |    27  100.0%         14     +  89755475  89755501              DQ572138     2    28    29
browser |    28  100.0%         14     + 101295323 101295350              DQ572138     2    29    29
browser |    28  100.0%         15     -  23767523  23767550              DQ572138     2    29    29
browser |    28  100.0%         15     -  29897697  29897724              DQ572138     2    29    29
browser |    28  100.0%         15     -  49524757  49524784              DQ572138     2    29    29
browser |    29  100.0%         15     -  50894874  50894902              DQ572138     1    29    29
browser |    28  100.0%         15     +  51415935  51415962              DQ572138     2    29    29
browser |    28  100.0%         15     -  82866186  82866213              DQ572138     2    29    29
browser |    28  100.0%         15     +  87532479  87532506              DQ572138     2    29    29
browser |    28  100.0%         15     + 100538100 100538127              DQ572138     2    29    29
browser |    28  100.0%  15_KI270905v1_alt     -   2181840   2181867              DQ572138     2    29    29
browser |    28  100.0%  15_KN538374v1_fix     -   2069356   2069383              DQ572138     2    29    29
browser |    28  100.0%         16     +  51421932  51421959              DQ572138     2    29    29
browser |    29  100.0%         16     -  53075060  53075088              DQ572138     1    29    29
browser |    27  100.0%         17     +  15778771  15778797              DQ572138     2    28    29
browser |    27  100.0%         17     +  43319419  43319445              DQ572138     3    29    29
browser |    26  100.0%         17     +  52325277  52325302              DQ572138     4    29    29
browser |    28  100.0%         17     -  53458516  53458543              DQ572138     2    29    29
browser |    29  100.0%         17     +  55992723  55992751              DQ572138     1    29    29
browser |    28  100.0%         17     +  69697989  69698016              DQ572138     2    29    29
browser |    28  100.0%         18     +   5270975   5271002              DQ572138     2    29    29
browser |    28  100.0%         18     -   9051370   9051397              DQ572138     2    29    29
browser |    28  100.0%         18     -  10943382  10943409              DQ572138     2    29    29
browser |    29  100.0%         18     +  30667816  30667844              DQ572138     1    29    29
browser |    28  100.0%         18     -  47182765  47182792              DQ572138     2    29    29
browser |    28  100.0%         18     +  64360902  64360929              DQ572138     2    29    29
browser |    28  100.0%         18     -  71847373  71847400              DQ572138     2    29    29
browser |    28  100.0%         18     -  73373046  73373073              DQ572138     2    29    29
browser |    27  100.0%         18     +  77265326  77265352              DQ572138     3    29    29
browser |    28  100.0%         18     +  80014513  80014540              DQ572138     2    29    29
browser |    26  100.0%         19     +   9815275   9815300              DQ572138     4    29    29
browser |    28  100.0%         19     -  11633973  11634000              DQ572138     2    29    29
browser |    27  100.0%         19     +  28031271  28031297              DQ572138     3    29    29
browser |    29  100.0%          2     -  13741440  13741468              DQ572138     1    29    29
browser |    28  100.0%          2     -  16575081  16575108              DQ572138     2    29    29
browser |    28  100.0%          2     +  21378823  21378850              DQ572138     2    29    29
browser |    26  100.0%          2     +  21982365  21982390              DQ572138     2    27    29
browser |    28  100.0%          2     +  34171626  34171653              DQ572138     2    29    29
browser |    28  100.0%          2     +  44891726  44891753              DQ572138     2    29    29
browser |    28  100.0%          2     -  51377508  51377535              DQ572138     2    29    29
browser |    26  100.0%          2     +  75740930  75740955              DQ572138     4    29    29
browser |    28  100.0%          2     +  84092461  84092488              DQ572138     2    29    29
browser |    26  100.0%          2     +  87830163  87830188              DQ572138     2    27    29
browser |    27  100.0%          2     -  98668791  98668817              DQ572138     3    29    29
browser |    26  100.0%          2     - 123132702 123132727              DQ572138     2    27    29
browser |    28  100.0%          2     - 129696026 129696053              DQ572138     2    29    29
browser |    28  100.0%          2     - 143053008 143053035              DQ572138     2    29    29
browser |    26  100.0%          2     + 158027437 158027462              DQ572138     2    27    29
browser |    26  100.0%          2     - 158409386 158409411              DQ572138     2    27    29
browser |    27  100.0%          2     + 168414784 168414810              DQ572138     2    28    29
browser |    28  100.0%          2     + 174724553 174724580              DQ572138     2    29    29
browser |    27  100.0%          2     + 181166564 181166590              DQ572138     1    27    29
browser |    28  100.0%          2     - 185348096 185348123              DQ572138     2    29    29
browser |    28  100.0%          2     - 196084056 196084083              DQ572138     2    29    29
browser |    28  100.0%          2     - 198158072 198158099              DQ572138     2    29    29
browser |    26  100.0%          2     - 210063564 210063589              DQ572138     4    29    29
browser |    26  100.0%          2     + 210500617 210500642              DQ572138     1    26    29
browser |    28  100.0%          2     - 228077443 228077470              DQ572138     2    29    29
browser |    26  100.0%         20     -   4632519   4632544              DQ572138     2    27    29
browser |    29  100.0%         20     -  45401078  45401106              DQ572138     1    29    29
browser |    26  100.0%         21     -  15815544  15815569              DQ572138     2    27    29
browser |    28  100.0%         21     -  18429033  18429066              DQ572138     2    29    29
browser |    28  100.0%         21     -  28759227  28759254              DQ572138     2    29    29
browser |    26  100.0%         21     -  35837367  35837392              DQ572138     4    29    29
browser |    29  100.0%         21     -  41463618  41463646              DQ572138     1    29    29
browser |    28  100.0%          3     +   3318050   3318077              DQ572138     2    29    29
browser |    28  100.0%          3     +  22851995  22852022              DQ572138     2    29    29
browser |    28  100.0%          3     +  30960826  30960854              DQ572138     2    29    29
browser |    28  100.0%          3     -  34877254  34877281              DQ572138     2    29    29
browser |    26  100.0%          3     +  35145904  35145929              DQ572138     4    29    29
browser |    28  100.0%          3     -  62951789  62951816              DQ572138     2    29    29
browser |    28  100.0%          3     -  87525925  87525952              DQ572138     2    29    29
browser |    28  100.0%          3     +  96436384  96436411              DQ572138     2    29    29
browser |    28  100.0%          3     + 102854784 102854811              DQ572138     2    29    29
browser |    27  100.0%          3     + 110703938 110703964              DQ572138     2    28    29
browser |    28  100.0%          3     + 133011329 133011356              DQ572138     2    29    29
browser |    28  100.0%          3     - 145027997 145028024              DQ572138     2    29    29
browser |    29  100.0%          3     + 159755905 159755933              DQ572138     1    29    29
browser |    29  100.0%          3     + 161590422 161590450              DQ572138     1    29    29
browser |    28  100.0%          3     + 165692485 165692512              DQ572138     2    29    29
browser |    26  100.0%          3     + 166613523 166613548              DQ572138     2    27    29
browser |    26  100.0%          3     + 167764940 167764965              DQ572138     2    27    29
browser |    27  100.0%          3     + 168929546 168929572              DQ572138     2    28    29
browser |    29  100.0%          3     - 173073940 173073968              DQ572138     1    29    29
browser |    26  100.0%          3     + 189180589 189180614              DQ572138     2    27    29
browser |    28  100.0%          3     + 191546994 191547021              DQ572138     2    29    29
browser |    28  100.0%          3     - 192458430 192458457              DQ572138     2    29    29
browser |    27  100.0%          3     + 192528361 192528387              DQ572138     3    29    29
browser |    28  100.0%          4     +   5512719   5512746              DQ572138     2    29    29
browser |    29  100.0%          4     +  12831974  12832002              DQ572138     1    29    29
browser |    27  100.0%          4     +  18229445  18229471              DQ572138     2    28    29
browser |    28  100.0%          4     -  22431427  22431454              DQ572138     2    29    29
browser |    26  100.0%          4     -  23104966  23104991              DQ572138     2    27    29
browser |    27  100.0%          4     -  27417725  27417751              DQ572138     1    27    29
browser |    28  100.0%          4     +  28204527  28204554              DQ572138     2    29    29
browser |    28  100.0%          4     +  32809956  32809983              DQ572138     2    29    29
browser |    28   96.5%          4     +  34805809  34805836              DQ572138     2    29    29
browser |    28  100.0%          4     -  39534289  39534316              DQ572138     2    29    29
browser |    28  100.0%          4     -  42564459  42564486              DQ572138     2    29    29
browser |    26  100.0%          4     -  43035865  43035890              DQ572138     2    27    29
browser |    26  100.0%          4     -  44644172  44644197              DQ572138     2    27    29
browser |    26  100.0%          4     +  45134577  45134602              DQ572138     2    27    29
browser |    26  100.0%          4     -  58358712  58358737              DQ572138     2    27    29
browser |    28  100.0%          4     +  68691949  68691976              DQ572138     2    29    29
browser |    28  100.0%          4     -  71738733  71738760              DQ572138     2    29    29
browser |    28  100.0%          4     +  84230201  84230228              DQ572138     2    29    29
browser |    28  100.0%          4     +  89932235  89932262              DQ572138     2    29    29
browser |    28  100.0%          4     +  91820627  91820654              DQ572138     2    29    29
browser |    28  100.0%          4     +  97878092  97878119              DQ572138     2    29    29
browser |    26  100.0%          4     - 113401220 113401245              DQ572138     2    27    29
browser |    28  100.0%          4     - 130965688 130965715              DQ572138     2    29    29
browser |    29  100.0%          4     - 132089545 132089573              DQ572138     1    29    29
browser |    28  100.0%          4     + 150957876 150957903              DQ572138     2    29    29
browser |    26  100.0%          4     + 154852389 154852414              DQ572138     2    27    29
browser |    29  100.0%          4     + 166415487 166415515              DQ572138     1    29    29
browser |    28  100.0%          4     - 168242467 168242494              DQ572138     2    29    29
browser |    27  100.0%          4     + 176955122 176955148              DQ572138     2    28    29
browser |    26  100.0%          4     + 177111893 177111918              DQ572138     2    27    29
browser |    28  100.0%  4_GL000257v2_alt     +    268294    268321              DQ572138     2    29    29
browser |    28  100.0%          5     +   4655569   4655596              DQ572138     2    29    29
browser |    28  100.0%          5     -   9085920   9085947              DQ572138     2    29    29
browser |    29  100.0%          5     +  14604782  14604810              DQ572138     1    29    29
browser |    28  100.0%          5     -  18681679  18681707              DQ572138     2    29    29
browser |    28  100.0%          5     +  23942739  23942766              DQ572138     2    29    29
browser |    27  100.0%          5     +  30255186  30255212              DQ572138     2    28    29
browser |    28  100.0%          5     -  34766393  34766420              DQ572138     2    29    29
browser |    27  100.0%          5     -  38235473  38235499              DQ572138     2    28    29
browser |    26  100.0%          5     +  58475076  58475101              DQ572138     2    27    29
browser |    26  100.0%          5     -  64060226  64060251              DQ572138     2    27    29
browser |    28  100.0%          5     +  71850017  71850044              DQ572138     2    29    29
browser |    29  100.0%          5     -  73768424  73768452              DQ572138     1    29    29
browser |    28  100.0%          5     +  80849160  80849187              DQ572138     2    29    29
browser |    28  100.0%          5     +  91565000  91565027              DQ572138     2    29    29
browser |    28  100.0%          5     + 104095207 104095234              DQ572138     2    29    29
browser |    26  100.0%          5     - 120950233 120950258              DQ572138     2    27    29
browser |    28  100.0%          5     - 130878914 130878941              DQ572138     2    29    29
browser |    28  100.0%          5     + 157396872 157396899              DQ572138     2    29    29
browser |    28  100.0%          5     - 159267224 159267251              DQ572138     2    29    29
browser |    28  100.0%          5     + 165441824 165441851              DQ572138     2    29    29
browser |    28  100.0%          6     -  45271874  45271901              DQ572138     2    29    29
browser |    27  100.0%          6     -  49127965  49127991              DQ572138     2    28    29
browser |    28  100.0%          6     +  49626446  49626473              DQ572138     2    29    29
browser |    28  100.0%          6     +  50262174  50262201              DQ572138     2    29    29
browser |    28  100.0%          6     -  54797659  54797686              DQ572138     2    29    29
browser |    27  100.0%          6     -  55630197  55630223              DQ572138     1    27    29
browser |    28  100.0%          6     -  56931654  56931681              DQ572138     2    29    29
browser |    26   96.2%          6     -  67543356  67543381              DQ572138     4    29    29
browser |    28  100.0%          6     -  74623781  74623808              DQ572138     2    29    29
browser |    29  100.0%          6     -  83571410  83571439              DQ572138     1    29    29
browser |    26  100.0%          6     +  86796147  86796172              DQ572138     2    27    29
browser |    28  100.0%          6     -  95632014  95632041              DQ572138     2    29    29
browser |    29  100.0%          6     - 106863569 106863597              DQ572138     1    29    29
browser |    28  100.0%          6     - 112609660 112609687              DQ572138     2    29    29
browser |    28  100.0%          6     + 121872006 121872033              DQ572138     2    29    29
browser |    28  100.0%          6     - 140188862 140188889              DQ572138     2    29    29
browser |    28  100.0%          6     + 143785349 143785376              DQ572138     2    29    29
browser |    28  100.0%          6     - 145126726 145126753              DQ572138     2    29    29
browser |    28  100.0%          6     - 153336051 153336078              DQ572138     2    29    29
browser |    28  100.0%          6     + 155237265 155237292              DQ572138     2    29    29
browser |    28  100.0%          6     + 169609054 169609081              DQ572138     2    29    29
browser |    28  100.0%  6_GL000252v2_alt     -   3694219   3694246              DQ572138     2    29    29
browser |    28   96.5%  6_GL000253v2_alt     -   3758169   3758196              DQ572138     2    29    29
browser |    28   96.5%  6_GL000254v2_alt     -   3794794   3794821              DQ572138     2    29    29
browser |    26   96.2%  6_KN196478v1_fix     -      9891      9916              DQ572138     4    29    29
browser |    28   96.5%  6_KQ031387v1_fix     -     75550     75577              DQ572138     2    29    29
browser |    26  100.0%          7     -   9597119   9597144              DQ572138     3    28    29
browser |    28  100.0%          7     +  22085709  22085736              DQ572138     2    29    29
browser |    27  100.0%          7     -  32522357  32522383              DQ572138     2    28    29
browser |    28  100.0%          7     +  42364036  42364063              DQ572138     2    29    29
browser |    26  100.0%          7     -  42560504  42560529              DQ572138     2    27    29
browser |    28  100.0%          7     +  46429398  46429425              DQ572138     2    29    29
browser |    27  100.0%          7     +  46648000  46648026              DQ572138     2    28    29
browser |    26  100.0%          7     -  85435008  85435033              DQ572138     2    27    29
browser |    28  100.0%          7     + 104556003 104556030              DQ572138     2    29    29
browser |    28  100.0%          7     + 110480646 110480673              DQ572138     2    29    29
browser |    28  100.0%          7     + 115162735 115162762              DQ572138     2    29    29
browser |    28  100.0%          7     - 119819107 119819134              DQ572138     2    29    29
browser |    28  100.0%          7     - 124589598 124589625              DQ572138     2    29    29
browser |    28  100.0%          7     + 144427172 144427199              DQ572138     2    29    29
browser |    28  100.0%          7     - 153466175 153466202              DQ572138     2    29    29
browser |    28  100.0%  7_KZ208913v1_alt     +    476628    476655              DQ572138     2    29    29
browser |    28   96.5%          8     +   8923956   8923983              DQ572138     2    29    29
browser |    28  100.0%          8     -  33652474  33652501              DQ572138     2    29    29
browser |    28  100.0%          8     -  39353910  39353937              DQ572138     2    29    29
browser |    28  100.0%          8     +  51731363  51731390              DQ572138     2    29    29
browser |    28  100.0%          8     +  65046614  65046641              DQ572138     2    29    29
browser |    29  100.0%          8     -  70512971  70512999              DQ572138     1    29    29
browser |    28  100.0%          8     +  70821258  70821285              DQ572138     2    29    29
browser |    26  100.0%          8     +  77937670  77937695              DQ572138     2    27    29
browser |    28  100.0%          8     +  78270643  78270670              DQ572138     2    29    29
browser |    28  100.0%          8     +  83022086  83022113              DQ572138     2    29    29
browser |    26  100.0%          8     + 103669719 103669744              DQ572138     2    27    29
browser |    27  100.0%          8     - 106674235 106674261              DQ572138     2    28    29
browser |    28  100.0%          8     - 125712627 125712654              DQ572138     2    29    29
browser |    27  100.0%          8     - 135013519 135013545              DQ572138     3    29    29
browser |    28  100.0%          8     - 137078414 137078441              DQ572138     2    29    29
browser |    28  100.0%  8_KI270822v1_alt     -    259651    259678              DQ572138     2    29    29
browser |    26  100.0%          9     +   3871150   3871175              DQ572138     4    29    29
browser |    26  100.0%          9     -  11056226  11056251              DQ572138     2    27    29
browser |    28  100.0%          9     +  11122307  11122334              DQ572138     2    29    29
browser |    26  100.0%          9     -  24203810  24203835              DQ572138     2    27    29
browser |    26  100.0%          9     -  72887117  72887142              DQ572138     2    27    29
browser |    28  100.0%          9     -  73255397  73255424              DQ572138     2    29    29
browser |    28  100.0%          9     +  75292664  75292691              DQ572138     2    29    29
browser |    28  100.0%          9     + 103463747 103463775              DQ572138     2    29    29
browser |    27  100.0%          9     + 104524661 104524687              DQ572138     3    29    29
browser |    28  100.0%          9     - 107159707 107159734              DQ572138     2    29    29
browser |    28  100.0%          X     -  25706132  25706159              DQ572138     2    29    29
browser |    26  100.0%          X     +  26351002  26351027              DQ572138     2    27    29
browser |    28  100.0%          X     -  35305792  35305819              DQ572138     2    29    29
browser |    26  100.0%          X     +  35398174  35398199              DQ572138     2    27    29
browser |    28  100.0%          X     -  36905279  36905306              DQ572138     2    29    29
browser |    26  100.0%          X     +  48852526  48852551              DQ572138     2    27    29
browser |    29  100.0%          X     +  75017866  75017894              DQ572138     1    29    29
browser |    28  100.0%          X     +  78928723  78928750              DQ572138     2    29    29
browser |    27  100.0%          X     +  81865320  81865346              DQ572138     1    27    29
browser |    27  100.0%          X     -  90870994  90871020              DQ572138     3    29    29
browser |    26  100.0%          X     -  92441962  92441987              DQ572138     2    27    29
browser |    28  100.0%          X     +  92556550  92556577              DQ572138     2    29    29
browser |    28  100.0%          X     +  95641598  95641625              DQ572138     2    29    29
browser |    27  100.0%          X     -  96639530  96639556              DQ572138     1    27    29
browser |    28  100.0%          X     +  99715083  99715110              DQ572138     2    29    29
browser |    28  100.0%          X     + 102817917 102817944              DQ572138     2    29    29
browser |    27  100.0%          X     + 106210082 106210108              DQ572138     1    27    29
browser |    28  100.0%          X     - 115078232 115078259              DQ572138     2    29    29
browser |    28  100.0%          X     - 122098327 122098354              DQ572138     2    29    29
browser |    27  100.0%          X     + 123317619 123317645              DQ572138     3    29    29
browser |    28  100.0%          X     - 123759487 123759514              DQ572138     2    29    29
browser |    27  100.0%          X     - 140173136 140173162              DQ572138     2    28    29
browser |    28  100.0%          X     - 141194243 141194270              DQ572138     2    29    29
browser |    28  100.0%          X     - 145639629 145639656              DQ572138     2    29    29
browser |    28  100.0%          X     + 149252013 149252040              DQ572138     2    29    29
browser |    28  100.0%          X     - 155409162 155409189              DQ572138     2    29    29
browser |    27  100.0%          X     + 155440926 155440952              DQ572138     2    28    29
browser |    27  100.0%          Y     -   4453378   4453404              DQ572138     3    29    29
browser |    26  100.0%          Y     -   5555098   5555123              DQ572138     2    27    29
browser |    28  100.0%          Y     +   5675752   5675779              DQ572138     2    29    29
browser |    28  100.0%          Y     -   5719916   5719943              DQ572138     2    29    29

View details of parts of alignment within browser window
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View table schema

Go to Human mRNAs track controls

Data last updated: 2019-10-03


p12 Note: Includes annotations on GRCh38.p12 patch sequences

Description

The mRNA track shows alignments between human mRNAs in GenBank and the genome.

Display Conventions and Configuration

This track follows the display conventions for PSL alignment tracks. In dense display mode, the items that are more darkly shaded indicate matches of better quality.

The description page for this track has a filter that can be used to change the display mode, alter the color, and include/exclude a subset of items within the track. This may be helpful when many items are shown in the track display, especially when only some are relevant to the current task.

To use the filter:

  1. Type a term in one or more of the text boxes to filter the mRNA display. For example, to apply the filter to all mRNAs expressed in a specific organ, type the name of the organ in the tissue box. To view the list of valid terms for each text box, consult the table in the Table Browser that corresponds to the factor on which you wish to filter. For example, the "tissue" table contains all the types of tissues that can be entered into the tissue text box. Multiple terms may be entered at once, separated by a space. Wildcards may also be used in the filter.
  2. If filtering on more than one value, choose the desired combination logic. If "and" is selected, only mRNAs that match all filter criteria will be highlighted. If "or" is selected, mRNAs that match any one of the filter criteria will be highlighted.
  3. Choose the color or display characteristic that should be used to highlight or include/exclude the filtered items. If "exclude" is chosen, the browser will not display mRNAs that match the filter criteria. If "include" is selected, the browser will display only those mRNAs that match the filter criteria.

This track may also be configured to display codon coloring, a feature that allows the user to quickly compare mRNAs against the genomic sequence. For more information about this option, go to the Codon and Base Coloring for Alignment Tracks page. Several types of alignment gap may also be colored; for more information, go to the Alignment Insertion/Deletion Display Options page.

Methods

GenBank human mRNAs were aligned against the genome using the blat program. When a single mRNA aligned in multiple places, the alignment having the highest base identity was found. Only alignments having a base identity level within 0.5% of the best and at least 96% base identity with the genomic sequence were kept.

Credits

The mRNA track was produced at UCSC from mRNA sequence data submitted to the international public sequence databases by scientists worldwide.

References

Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42. PMID: 23193287; PMC: PMC3531190

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. PMID: 14681350; PMC: PMC308779

Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518