Human Gene SH2D5 (uc009vpy.1) Description and Page Index
  Description: Homo sapiens SH2 domain containing 5 (SH2D5), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:21,046,225-21,059,133 Size: 12,909 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr1:21,048,285-21,054,537 Size: 6,253 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:21,046,225-21,059,133)mRNA (may differ from genome)Protein (423 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SH2D5_HUMAN
DESCRIPTION: RecName: Full=SH2 domain-containing protein 5;
SIMILARITY: Contains 1 SH2 domain.
SEQUENCE CAUTION: Sequence=BAC85974.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=CAI23392.1; Type=Erroneous initiation;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SH2D5
CDC HuGE Published Literature: SH2D5

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 22.34 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 127.33 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -260.80502-0.520 Picture PostScript Text
3' UTR -878.202060-0.426 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
IPR011993 - PH_like_dom
IPR006020 - PTyr_interaction_dom
IPR000980 - SH2

SCOP Domains:
50729 - PH domain-like
55550 - SH2 domain

ModBase Predicted Comparative 3D Structure on Q6ZV89
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

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

Cellular Component:
GO:0005886 plasma membrane
GO:0014069 postsynaptic density
GO:0016020 membrane
GO:0030054 cell junction
GO:0045202 synapse
GO:0045211 postsynaptic membrane


-  Descriptions from all associated GenBank mRNAs
  AK123236 - Homo sapiens cDNA FLJ41242 fis, clone BRAMY2032290.
AK124869 - Homo sapiens cDNA FLJ42879 fis, clone BRHIP3001283.
AK123841 - Homo sapiens cDNA FLJ41847 fis, clone NT2RI3003362.
JD409003 - Sequence 390027 from Patent EP1572962.
JD160101 - Sequence 141125 from Patent EP1572962.
JD060623 - Sequence 41647 from Patent EP1572962.
JD364864 - Sequence 345888 from Patent EP1572962.
JD189576 - Sequence 170600 from Patent EP1572962.
JD253717 - Sequence 234741 from Patent EP1572962.
JD068900 - Sequence 49924 from Patent EP1572962.
JD358767 - Sequence 339791 from Patent EP1572962.
JD335075 - Sequence 316099 from Patent EP1572962.
JD167028 - Sequence 148052 from Patent EP1572962.
JD125114 - Sequence 106138 from Patent EP1572962.
JD467146 - Sequence 448170 from Patent EP1572962.
JD068049 - Sequence 49073 from Patent EP1572962.
JD342905 - Sequence 323929 from Patent EP1572962.
JD218920 - Sequence 199944 from Patent EP1572962.
JD530433 - Sequence 511457 from Patent EP1572962.
JD510591 - Sequence 491615 from Patent EP1572962.
JD241972 - Sequence 222996 from Patent EP1572962.
JD523939 - Sequence 504963 from Patent EP1572962.
JD122603 - Sequence 103627 from Patent EP1572962.
JD443144 - Sequence 424168 from Patent EP1572962.
JD119596 - Sequence 100620 from Patent EP1572962.
AK296431 - Homo sapiens cDNA FLJ55981 complete cds, highly similar to SH2 domain-containing protein 5.
JD246312 - Sequence 227336 from Patent EP1572962.
JD191236 - Sequence 172260 from Patent EP1572962.
JD210377 - Sequence 191401 from Patent EP1572962.
JD474366 - Sequence 455390 from Patent EP1572962.
AB528937 - Synthetic construct DNA, clone: pF1KE0769, Homo sapiens SH2D5 gene for SH2 domain containing protein 5, without stop codon, in Flexi system.
JD353969 - Sequence 334993 from Patent EP1572962.
JD348216 - Sequence 329240 from Patent EP1572962.
JD181387 - Sequence 162411 from Patent EP1572962.
JD474451 - Sequence 455475 from Patent EP1572962.
JD322615 - Sequence 303639 from Patent EP1572962.
JD067755 - Sequence 48779 from Patent EP1572962.
JD560152 - Sequence 541176 from Patent EP1572962.
JD320016 - Sequence 301040 from Patent EP1572962.
JD173734 - Sequence 154758 from Patent EP1572962.
JD192976 - Sequence 174000 from Patent EP1572962.
JD135498 - Sequence 116522 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B7Z3W3, NM_001103161, NP_001096630, Q5SSJ2, Q6ZV89, SH2D5_HUMAN
UCSC ID: uc009vpy.1
RefSeq Accession: NM_001103161
Protein: Q6ZV89 (aka SH2D5_HUMAN)
CCDS: CCDS44080.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001103161.1
exon count: 10CDS single in 3' UTR: no RNA size: 3834
ORF size: 1272CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2510.00frame 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.