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TSPY4 Gene

protein-coding   GIFtS: 30
GCID: GC0YP009176

Testis Specific Protein, Y-Linked 4

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Testis Specific Protein, Y-Linked 41 2
TSPY102
TSPY82
Testis-Specific Y-Encoded Protein 42

External Ids:    HGNC: 372871   Entrez Gene: 7283952   Ensembl: ENSG000002338037   UniProtKB: P0CV993   

Export aliases for TSPY4 gene to outside databases

Previous GC identifer: GC0YP009236


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TSPY4 Gene:
TSPY4 (testis specific protein, Y-linked 4) is a protein-coding gene. An important paralog of this gene is SET.

UniProtKB/Swiss-Prot: TSPY4_HUMAN, P0CV99
Function: Unknown. May be involved in sperm differentiation and proliferation (By similarity)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for TSPY4
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TSPY4


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: Yp11.2   Ensembl cytogenetic band:  Yp11.2   HGNC cytogenetic band: Yp11.2

TSPY4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TSPY4 gene location

GeneLoc information about chromosome Y         GeneLoc Exon Structure

GeneLoc location for GC0YP009176:  view genomic region     (about GC identifiers)

Start:
9,175,073 bp from pter      End:
9,177,893 bp from pter
Size:
2,821 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
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UniProtKB/Swiss-Prot: TSPY4_HUMAN, P0CV99 (See protein sequence)
Recommended Name: Testis-specific Y-encoded protein 4  
Size: 314 amino acids; 35727 Da

Explore the universe of human proteins at neXtProt for TSPY4: NX_P0CV99

REFSEQ proteins: NP_001157943.1  
ENSEMBL proteins: 
 ENSP00000399668   ENSP00000372471  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro protein domain:
 IPR002164 NAP_family

Graphical View of Domain Structure for InterPro Entry P0CV99

ProtoNet protein and cluster: P0CV99

UniProtKB/Swiss-Prot: TSPY4_HUMAN, P0CV99
Similarity: Belongs to the nucleosome assembly protein (NAP) family


Find genes that share domains with TSPY4           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: TSPY4_HUMAN, P0CV99
Function: Unknown. May be involved in sperm differentiation and proliferation (By similarity)

Animal Models:

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
TSPY4_HUMAN, P0CV99: Cytoplasm (By similarity). Nucleus (By similarity)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol3
nucleus2
mitochondrion1
peroxisome1

Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005634nucleus IEA--
GO:0005737cytoplasm IEA--

Find genes that share ontologies with TSPY4           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TSPY4
Interactions:

    Search GeneGlobe Interaction Network for TSPY4

STRING Interaction Network Preview (showing 5 interactants - click image to see more details)

5 Interacting proteins for TSPY4 (ENSP000003996684) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
UBCENSP000003448184STRING: ENSP00000344818
ASF1AENSP000002295954STRING: ENSP00000229595
ASF1BENSP000002633824STRING: ENSP00000263382
H2AFVENSP000003084054STRING: ENSP00000308405
H2AFZENSP000002964174STRING: ENSP00000296417
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Gene Ontology (GO): 4 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006334nucleosome assembly IEA--
GO:0007283spermatogenesis IEA--
GO:0007506gonadal mesoderm development IEA--
GO:0030154cell differentiation IEA--

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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
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REFSEQ mRNAs for TSPY4 gene: 
NM_001164471.1  

4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000426950(uc004frn.2 uc004fro.2 uc022cja.1) ENST00000383008
ENST00000466036 ENST00000482082
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GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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TSPY4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
TSPY4 Expression
About this image

TSPY4 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of animals.

Orthologs for TSPY4 gene from Selected species (see all 9)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
dog
(Canis familiaris)
Mammalia --
Uncharacterized protein
33(a)
many ↔ many
X(62802601-62803695)
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
26(a)
1 → many
2(89264771-89274104)
zebrafish
(Danio rerio)
Actinopterygii TSPY26
testis specific protein, Y-linked 2
16(a)
1 → many
8(26561010-26569017) ENSDARG00000005015
fruit fly
(Drosophila melanogaster)
Insecta Set6
Set
26(a)
1 → many
3R(11089257-11090975)
worm
(Caenorhabditis elegans)
Secernentea spr-26
Protein SPR-2, isoform b (spr-2) mRNA, complete cd...
20(a)
1 → many
IV(8891470-8892747) WBGene00005007


ENSEMBL Gene Tree for TSPY4 (if available)
TreeFam Gene Tree for TSPY4 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for TSPY4 gene
TSPY101 2  TSPY31 2  TSPY81 2  TSPY21 2  TSPY11 2  SET2  TSPY6P2  TSPYL12  
TSPYL62  TSPYL22  TSPYL52  TSPYL42  
16 SIMAP similar genes for TSPY4 using alignment to 2 protein entries:     TSPY4_HUMAN (see all proteins):
TSPY1    TSPY8    TSPY2    TSPY10    TSPY3    TSPY6P
FAM197Y1    DKFZp434M235    CYorf16    TSPYL1    LOC728395    TSPYL4
TSPYL    SET    TSPYL6    TSPY26P

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(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Polymorphic Variants from UniProtKB/Swiss-Prot
TSPY4_HUMAN, P0CV99: Maps to a tandemly repeated region on chromosome Yp11; additionally at least one copy is reported
originating from Yq. The gene is thought to be present with an inter-individual variation in copy number and
between 20 and 60 copies per Y chromosome are expected. 35 tandemly repeated gene copies on Yp11 originating from
one individual have been reported (PubMed:12815422)


2 SNPs for TSPY4    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr Y posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs3681200911,2
----9177466(+) TAGGGC/TCCAGT 1 -- int10--------

HapMap Linkage Disequilibrium report for TSPY4 (9175073 - 9177893 bp)

Structural Variations
     Database of Genomic Variants (DGV) 4 variations for TSPY4:    About this table    
Variant IDTypeSubtypePubMed ID
nsv469840CNV Loss16826518
nsv471608CNV Gain+Loss15918152
essv6780CNV CNV17122850
nsv7473OTHER Inversion18451855

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for TSPY4 gene integrated from 10 sources:
(articles sorted by number of sources associating them with TSPY4)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)
  4. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PubMed id 12815422)2 Skaletsky H.... Page D.C. (Nature 2003)
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 728395 HGNC: 37287 Ensembl:ENSG00000233803 euGenes: HUgn728395 ECgene: TSPY4
H-InvDB: TSPY4

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for TSPY4 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for TSPY4 gene:
Search GeneIP for patents involving TSPY4

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

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