Human Gene SUSD6 (uc001xlk.3)
  Description: Homo sapiens SUSD6 (SUSD6), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr14:70,078,310-70,181,861 Size: 103,552 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr14:70,125,310-70,177,696 Size: 52,387 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:70,078,310-70,181,861)mRNA (may differ from genome)Protein (303 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHPRDLynxMGIneXtProtOMIM
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: K0247_HUMAN
DESCRIPTION: RecName: Full=Uncharacterized protein KIAA0247; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Potential).
SIMILARITY: Contains 1 Sushi (CCP/SCR) domain.
SEQUENCE CAUTION: Sequence=BAA13378.2; Type=Erroneous initiation;

-  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


+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 30.93 RPKM in Brain - Cerebellum
Total median expression: 694.70 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.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -119.04316-0.377 Picture PostScript Text
3' UTR -1560.854165-0.375 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR016060 - Complement_control_module
IPR000436 - Sushi_SCR_CCP

Pfam Domains:
PF00084 - Sushi repeat (SCR repeat)

SCOP Domains:
57535 - Complement control module/SCR domain

ModBase Predicted Comparative 3D Structure on Q92537
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  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
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005515 protein binding

Biological Process:
GO:0006974 cellular response to DNA damage stimulus
GO:0008219 cell death

Cellular Component:
GO:0005575 cellular_component
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  HQ448490 - Synthetic construct Homo sapiens clone IMAGE:100071922; CCSB010835_01 KIAA0247 (KIAA0247) gene, encodes complete protein.
KJ892843 - Synthetic construct Homo sapiens clone ccsbBroadEn_02237 KIAA0247 gene, encodes complete protein.
LF209585 - JP 2014500723-A/17088: Polycomb-Associated Non-Coding RNAs.
AK309302 - Homo sapiens cDNA, FLJ99343.
BC064697 - Homo sapiens KIAA0247, mRNA (cDNA clone MGC:71667 IMAGE:30344263), complete cds.
AK311470 - Homo sapiens cDNA, FLJ18512.
D87434 - Homo sapiens mRNA for KIAA0247 gene.
MA445162 - JP 2018138019-A/17088: Polycomb-Associated Non-Coding RNAs.
LF213296 - JP 2014500723-A/20799: Polycomb-Associated Non-Coding RNAs.
JD128719 - Sequence 109743 from Patent EP1572962.
JD127105 - Sequence 108129 from Patent EP1572962.
MA448873 - JP 2018138019-A/20799: Polycomb-Associated Non-Coding RNAs.
JD082205 - Sequence 63229 from Patent EP1572962.
CU687940 - Synthetic construct Homo sapiens gateway clone IMAGE:100021131 5' read KIAA0247 mRNA.
AB384452 - Synthetic construct DNA, clone: pF1KA0247, Homo sapiens KIAA0247 gene for KIAA0247 protein, complete cds, without stop codon, in Flexi system.
EU831858 - Synthetic construct Homo sapiens clone HAIB:100066887; DKFZo004C1222 KIAA0247 protein (KIAA0247) gene, encodes complete protein.
EU831780 - Synthetic construct Homo sapiens clone HAIB:100066809; DKFZo008C1221 KIAA0247 protein (KIAA0247) gene, encodes complete protein.
LF329831 - JP 2014500723-A/137334: Polycomb-Associated Non-Coding RNAs.
LF329832 - JP 2014500723-A/137335: Polycomb-Associated Non-Coding RNAs.
LF329833 - JP 2014500723-A/137336: Polycomb-Associated Non-Coding RNAs.
JD209403 - Sequence 190427 from Patent EP1572962.
JD446904 - Sequence 427928 from Patent EP1572962.
LF329835 - JP 2014500723-A/137338: Polycomb-Associated Non-Coding RNAs.
JD207888 - Sequence 188912 from Patent EP1572962.
JD366090 - Sequence 347114 from Patent EP1572962.
JD240161 - Sequence 221185 from Patent EP1572962.
JD421785 - Sequence 402809 from Patent EP1572962.
JD456682 - Sequence 437706 from Patent EP1572962.
JD479332 - Sequence 460356 from Patent EP1572962.
JD520159 - Sequence 501183 from Patent EP1572962.
JD152802 - Sequence 133826 from Patent EP1572962.
JD219592 - Sequence 200616 from Patent EP1572962.
JD124404 - Sequence 105428 from Patent EP1572962.
JD117645 - Sequence 98669 from Patent EP1572962.
JD498502 - Sequence 479526 from Patent EP1572962.
JD403756 - Sequence 384780 from Patent EP1572962.
JD251317 - Sequence 232341 from Patent EP1572962.
JD423968 - Sequence 404992 from Patent EP1572962.
LF329836 - JP 2014500723-A/137339: Polycomb-Associated Non-Coding RNAs.
JD137146 - Sequence 118170 from Patent EP1572962.
JD203202 - Sequence 184226 from Patent EP1572962.
JD447814 - Sequence 428838 from Patent EP1572962.
JD261779 - Sequence 242803 from Patent EP1572962.
JD120475 - Sequence 101499 from Patent EP1572962.
LF329837 - JP 2014500723-A/137340: Polycomb-Associated Non-Coding RNAs.
JD447841 - Sequence 428865 from Patent EP1572962.
JD163361 - Sequence 144385 from Patent EP1572962.
JD355827 - Sequence 336851 from Patent EP1572962.
JD276858 - Sequence 257882 from Patent EP1572962.
JD469378 - Sequence 450402 from Patent EP1572962.
JD536797 - Sequence 517821 from Patent EP1572962.
LF329838 - JP 2014500723-A/137341: Polycomb-Associated Non-Coding RNAs.
JD098641 - Sequence 79665 from Patent EP1572962.
JD199266 - Sequence 180290 from Patent EP1572962.
JD386285 - Sequence 367309 from Patent EP1572962.
LF329839 - JP 2014500723-A/137342: Polycomb-Associated Non-Coding RNAs.
JD475336 - Sequence 456360 from Patent EP1572962.
JD226502 - Sequence 207526 from Patent EP1572962.
JD409486 - Sequence 390510 from Patent EP1572962.
LF329840 - JP 2014500723-A/137343: Polycomb-Associated Non-Coding RNAs.
JD273233 - Sequence 254257 from Patent EP1572962.
JD433174 - Sequence 414198 from Patent EP1572962.
JD297795 - Sequence 278819 from Patent EP1572962.
JD402351 - Sequence 383375 from Patent EP1572962.
LF329841 - JP 2014500723-A/137344: Polycomb-Associated Non-Coding RNAs.
JD307265 - Sequence 288289 from Patent EP1572962.
DQ593182 - Homo sapiens piRNA piR-33294, complete sequence.
JD446769 - Sequence 427793 from Patent EP1572962.
JD474423 - Sequence 455447 from Patent EP1572962.
AK130809 - Homo sapiens cDNA FLJ27299 fis, clone TMS04605.
JD530242 - Sequence 511266 from Patent EP1572962.
JD309576 - Sequence 290600 from Patent EP1572962.
JD119078 - Sequence 100102 from Patent EP1572962.
JD107681 - Sequence 88705 from Patent EP1572962.
JD341422 - Sequence 322446 from Patent EP1572962.
LF329842 - JP 2014500723-A/137345: Polycomb-Associated Non-Coding RNAs.
JD290042 - Sequence 271066 from Patent EP1572962.
JD106277 - Sequence 87301 from Patent EP1572962.
JD071518 - Sequence 52542 from Patent EP1572962.
JD431691 - Sequence 412715 from Patent EP1572962.
JD429107 - Sequence 410131 from Patent EP1572962.
JD295532 - Sequence 276556 from Patent EP1572962.
JD219209 - Sequence 200233 from Patent EP1572962.
LF329843 - JP 2014500723-A/137346: Polycomb-Associated Non-Coding RNAs.
JD316386 - Sequence 297410 from Patent EP1572962.
JD390517 - Sequence 371541 from Patent EP1572962.
JD339809 - Sequence 320833 from Patent EP1572962.
JD499348 - Sequence 480372 from Patent EP1572962.
JD227706 - Sequence 208730 from Patent EP1572962.
JD102339 - Sequence 83363 from Patent EP1572962.
JD419780 - Sequence 400804 from Patent EP1572962.
JD530593 - Sequence 511617 from Patent EP1572962.
JD308993 - Sequence 290017 from Patent EP1572962.
JD070813 - Sequence 51837 from Patent EP1572962.
JD101142 - Sequence 82166 from Patent EP1572962.
JD443835 - Sequence 424859 from Patent EP1572962.
JD418701 - Sequence 399725 from Patent EP1572962.
JD258963 - Sequence 239987 from Patent EP1572962.
JD257552 - Sequence 238576 from Patent EP1572962.
JD276610 - Sequence 257634 from Patent EP1572962.
JD075605 - Sequence 56629 from Patent EP1572962.
JD148544 - Sequence 129568 from Patent EP1572962.
JD163959 - Sequence 144983 from Patent EP1572962.
JD291363 - Sequence 272387 from Patent EP1572962.
JD041031 - Sequence 22055 from Patent EP1572962.
JD385805 - Sequence 366829 from Patent EP1572962.
LF329844 - JP 2014500723-A/137347: Polycomb-Associated Non-Coding RNAs.
JD076746 - Sequence 57770 from Patent EP1572962.
JD077781 - Sequence 58805 from Patent EP1572962.
JD343699 - Sequence 324723 from Patent EP1572962.
JD450112 - Sequence 431136 from Patent EP1572962.
JD341826 - Sequence 322850 from Patent EP1572962.
LF329845 - JP 2014500723-A/137348: Polycomb-Associated Non-Coding RNAs.
LF329846 - JP 2014500723-A/137349: Polycomb-Associated Non-Coding RNAs.
JD502182 - Sequence 483206 from Patent EP1572962.
LF329847 - JP 2014500723-A/137350: Polycomb-Associated Non-Coding RNAs.
JD162068 - Sequence 143092 from Patent EP1572962.
LF329848 - JP 2014500723-A/137351: Polycomb-Associated Non-Coding RNAs.
JD350600 - Sequence 331624 from Patent EP1572962.
JD248102 - Sequence 229126 from Patent EP1572962.
LF329849 - JP 2014500723-A/137352: Polycomb-Associated Non-Coding RNAs.
JD087450 - Sequence 68474 from Patent EP1572962.
JD263685 - Sequence 244709 from Patent EP1572962.
JD155582 - Sequence 136606 from Patent EP1572962.
JD342581 - Sequence 323605 from Patent EP1572962.
JD496074 - Sequence 477098 from Patent EP1572962.
JD425029 - Sequence 406053 from Patent EP1572962.
JD273064 - Sequence 254088 from Patent EP1572962.
JD121090 - Sequence 102114 from Patent EP1572962.
JD188758 - Sequence 169782 from Patent EP1572962.
LF329850 - JP 2014500723-A/137353: Polycomb-Associated Non-Coding RNAs.
JD047976 - Sequence 29000 from Patent EP1572962.
LF329851 - JP 2014500723-A/137354: Polycomb-Associated Non-Coding RNAs.
LF329852 - JP 2014500723-A/137355: Polycomb-Associated Non-Coding RNAs.
MA565408 - JP 2018138019-A/137334: Polycomb-Associated Non-Coding RNAs.
MA565409 - JP 2018138019-A/137335: Polycomb-Associated Non-Coding RNAs.
MA565410 - JP 2018138019-A/137336: Polycomb-Associated Non-Coding RNAs.
MA565412 - JP 2018138019-A/137338: Polycomb-Associated Non-Coding RNAs.
MA565413 - JP 2018138019-A/137339: Polycomb-Associated Non-Coding RNAs.
MA565414 - JP 2018138019-A/137340: Polycomb-Associated Non-Coding RNAs.
MA565415 - JP 2018138019-A/137341: Polycomb-Associated Non-Coding RNAs.
MA565416 - JP 2018138019-A/137342: Polycomb-Associated Non-Coding RNAs.
MA565417 - JP 2018138019-A/137343: Polycomb-Associated Non-Coding RNAs.
MA565418 - JP 2018138019-A/137344: Polycomb-Associated Non-Coding RNAs.
MA565419 - JP 2018138019-A/137345: Polycomb-Associated Non-Coding RNAs.
MA565420 - JP 2018138019-A/137346: Polycomb-Associated Non-Coding RNAs.
MA565421 - JP 2018138019-A/137347: Polycomb-Associated Non-Coding RNAs.
MA565422 - JP 2018138019-A/137348: Polycomb-Associated Non-Coding RNAs.
MA565423 - JP 2018138019-A/137349: Polycomb-Associated Non-Coding RNAs.
MA565424 - JP 2018138019-A/137350: Polycomb-Associated Non-Coding RNAs.
MA565425 - JP 2018138019-A/137351: Polycomb-Associated Non-Coding RNAs.
MA565426 - JP 2018138019-A/137352: Polycomb-Associated Non-Coding RNAs.
MA565427 - JP 2018138019-A/137353: Polycomb-Associated Non-Coding RNAs.
MA565428 - JP 2018138019-A/137354: Polycomb-Associated Non-Coding RNAs.
MA565429 - JP 2018138019-A/137355: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: K0247_HUMAN, KIAA0247, NM_014734, NP_055549, Q92537
UCSC ID: uc001xlk.3
RefSeq Accession: NM_014734
Protein: Q92537 (aka K0247_HUMAN or K247_HUMAN)
CCDS: CCDS9796.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_014734.3
exon count: 6CDS single in 3' UTR: no RNA size: 5393
ORF size: 912CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2024.00frame shift in genome: no % Coverage: 100.00
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.