Human Gene SIRPD (uc002wfi.3) Description and Page Index
  Description: Homo sapiens signal-regulatory protein delta (SIRPD), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr20:1,514,897-1,538,343 Size: 23,447 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr20:1,515,071-1,538,299 Size: 23,229 Coding Exon Count: 4 

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 (chr20:1,514,897-1,538,343)mRNA (may differ from genome)Protein (197 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SIRPD_HUMAN
DESCRIPTION: RecName: Full=Signal-regulatory protein delta; Short=SIRP-delta; AltName: Full=Protein tyrosine phosphatase non-receptor type substrate 1-like 2; Flags: Precursor;
SUBCELLULAR LOCATION: Secreted (Potential).
SIMILARITY: Contains 1 Ig-like V-type (immunoglobulin-like) domain.

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

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C023035 3,4,5,3',4'-pentachlorobiphenyl

+  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: 56.27 RPKM in Testis
Total median expression: 60.71 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 -5.4044-0.123 Picture PostScript Text
3' UTR -31.63174-0.182 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
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub
IPR013106 - Ig_V-set

Pfam Domains:
PF07686 - Immunoglobulin V-set domain

SCOP Domains:
48726 - Immunoglobulin

ModBase Predicted Comparative 3D Structure on Q9H106
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
  Cellular Component:
GO:0005576 extracellular region


-  Descriptions from all associated GenBank mRNAs
  BC033502 - Homo sapiens signal-regulatory protein delta, mRNA (cDNA clone MGC:35245 IMAGE:5172531), complete cds.
AK093083 - Homo sapiens cDNA FLJ35764 fis, clone TESTI2004906, highly similar to Signal-regulatory protein delta precursor.
AX747909 - Sequence 1434 from Patent EP1308459.
JD444894 - Sequence 425918 from Patent EP1572962.
JD286879 - Sequence 267903 from Patent EP1572962.
JD402830 - Sequence 383854 from Patent EP1572962.
JD046204 - Sequence 27228 from Patent EP1572962.
KJ900120 - Synthetic construct Homo sapiens clone ccsbBroadEn_09514 SIRPD gene, encodes complete protein.
DQ891297 - Synthetic construct clone IMAGE:100003927; FLH170864.01X; RZPDo839C06100D signal-regulatory protein delta (SIRPD) gene, encodes complete protein.
EU176577 - Synthetic construct Homo sapiens clone IMAGE:100011388; FLH170863.01L; RZPDo839D01254D signal-regulatory protein delta (SIRPD) gene, encodes complete protein.
JD310736 - Sequence 291760 from Patent EP1572962.
JD118093 - Sequence 99117 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KS88, NM_178460, NP_848555, PTPNS1L2, Q5TFQ6, Q9H106, SIRPD_HUMAN
UCSC ID: uc002wfi.3
RefSeq Accession: NM_178460
Protein: Q9H106 (aka SIRPD_HUMAN)
CCDS: CCDS13018.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_178460.2
exon count: 4CDS single in 3' UTR: no RNA size: 868
ORF size: 594CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1071.00frame shift in genome: no % Coverage: 93.55
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.