Human Gene CSDE1 (uc001efj.3)
  Description: Homo sapiens cold shock domain containing E1, RNA-binding (CSDE1), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:115,259,534-115,292,828 Size: 33,295 Total Exon Count: 18 Strand: -


Page IndexSequence and LinksPrimersGenetic AssociationsCTDRNA-Seq Expression
Microarray ExpressionOther SpeciesmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:115,259,534-115,292,828)mRNA (may differ from genome)No protein
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSEnsemblExonPrimerGeneNetworkH-INVHGNC
LynxPubMedTreefamWikipedia

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CSDE1
CDC HuGE Published Literature: CSDE1

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 363.05 RPKM in Muscle - Skeletal
Total median expression: 5221.14 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AM392858 - Synthetic construct Homo sapiens clone IMAGE:100002734 for hypothetical protein (CSDE1 gene).
X02751 - Human N-ras mRNA and flanking regions.
CR749378 - Homo sapiens mRNA; cDNA DKFZp779J1455 (from clone DKFZp779J1455).
CR749431 - Homo sapiens mRNA; cDNA DKFZp779B0247 (from clone DKFZp779B0247).
BX648780 - Homo sapiens mRNA; cDNA DKFZp686O07132 (from clone DKFZp686O07132).
AB020692 - Homo sapiens KIAA0885 mRNA for KIAA0885 protein.
JD051269 - Sequence 32293 from Patent EP1572962.
JD484298 - Sequence 465322 from Patent EP1572962.
JD302616 - Sequence 283640 from Patent EP1572962.
AL050150 - Homo sapiens mRNA; cDNA DKFZp586J0620 (from clone DKFZp586J0620); partial cds.
AK130392 - Homo sapiens cDNA FLJ26882 fis, clone PRS09202, highly similar to UNR protein.
AK022516 - Homo sapiens cDNA FLJ12454 fis, clone NT2RM1000555, highly similar to UNR PROTEIN.
AK022528 - Homo sapiens cDNA FLJ12466 fis, clone NT2RM1000826, highly similar to UNR PROTEIN.
AL110192 - Homo sapiens mRNA; cDNA DKFZp566C233 (from clone DKFZp566C233); partial cds.
BX648561 - Homo sapiens mRNA; cDNA DKFZp779L1054 (from clone DKFZp779L1054).
BC021692 - Homo sapiens cold shock domain containing E1, RNA-binding, mRNA (cDNA clone IMAGE:3961444), partial cds.
AF077054 - Homo sapiens unr protein mRNA, complete cds.
JD273381 - Sequence 254405 from Patent EP1572962.
JD171859 - Sequence 152883 from Patent EP1572962.
BC017662 - Homo sapiens cDNA clone IMAGE:3912700, containing frame-shift errors.
JD292896 - Sequence 273920 from Patent EP1572962.
JD262562 - Sequence 243586 from Patent EP1572962.
AY049788 - Homo sapiens NRAS-related protein (UNR) mRNA, complete cds.
AK290146 - Homo sapiens cDNA FLJ78375 complete cds, highly similar to Homo sapiens cold shock domain containing E1, RNA-binding (CSDE1), transcript variant 1, mRNA.
BC032446 - Homo sapiens cold shock domain containing E1, RNA-binding, mRNA (cDNA clone MGC:40318 IMAGE:5111213), complete cds.
JD491675 - Sequence 472699 from Patent EP1572962.
AM393166 - Synthetic construct Homo sapiens clone IMAGE:100003053 for hypothetical protein (CSDE1 gene).
AM393479 - Synthetic construct Homo sapiens clone IMAGE:100002983 for hypothetical protein (CSDE1 gene).
AM393616 - Synthetic construct Homo sapiens clone IMAGE:100003054 for hypothetical protein (CSDE1 gene).
AM393624 - Synthetic construct Homo sapiens clone IMAGE:100003012 for hypothetical protein (CSDE1 gene).
AB384032 - Synthetic construct DNA, clone: pF1KSDA0885, Homo sapiens CSDE1 gene for cold shock domain-containing protein E1, complete cds, without stop codon, in Flexi system.
AF070542 - Homo sapiens clone 24514 unknown mRNA.
DQ575323 - Homo sapiens piRNA piR-43435, complete sequence.
DQ586108 - Homo sapiens piRNA piR-53220, complete sequence.
AK131495 - Homo sapiens cDNA FLJ16692 fis, clone TRACH3002561.
JD332705 - Sequence 313729 from Patent EP1572962.
JD304097 - Sequence 285121 from Patent EP1572962.
DQ591464 - Homo sapiens piRNA piR-58576, complete sequence.
JD501480 - Sequence 482504 from Patent EP1572962.
JD467922 - Sequence 448946 from Patent EP1572962.
JD175141 - Sequence 156165 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AY049788
UCSC ID: uc001efj.3
RefSeq Accession: NM_007158

-  Gene Model Information
 
category: nearCoding nonsense-mediated-decay: yes RNA accession: AY049788.1
exon count: 18CDS single in 3' UTR: no RNA size: 2537
ORF size: 0CDS single in intron: no Alignment % ID: 99.96
txCdsPredict score: 4037.50frame shift in genome: no % Coverage: 99.88
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.