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SPATS2 spermatogenesis associated serine rich 2 [ Homo sapiens (human) ]

Gene ID: 65244, updated on 12-Oct-2019

Summary

Official Symbol
SPATS2provided by HGNC
Official Full Name
spermatogenesis associated serine rich 2provided by HGNC
Primary source
HGNC:HGNC:18650
See related
Ensembl:ENSG00000123352 MIM:611667
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SCR59; P59SCR; SPATA10; Nbla00526
Expression
Broad expression in testis (RPKM 13.8), lymph node (RPKM 6.7) and 25 other tissues See more
Orthologs

Genomic context

See SPATS2 in Genome Data Viewer
Location:
12q13.12
Exon count:
16
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (49366905..49527441)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (49760688..49921208)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene complement C1q like 4 Neighboring gene DnaJ heat shock protein family (Hsp40) member C22 Neighboring gene FGFR1 oncogene partner 2 pseudogene Neighboring gene uncharacterized LOC105369761 Neighboring gene potassium voltage-gated channel subfamily H member 3 Neighboring gene microspherule protein 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev is identified to have a physical interaction with spermatogenesis associated, serine-rich 2 (SPATS2) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ13117

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
spermatogenesis-associated serine-rich protein 2
Names
putative protein product of Nbla00526
serine-rich spermatocytes and round spermatid 59 kDa protein
serine-rich spermatocytes and round spermatid protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001293285.1NP_001280214.1  spermatogenesis-associated serine-rich protein 2

    See identical proteins and their annotated locations for NP_001280214.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, and 3 encode the same protein.
    Source sequence(s)
    AK095582, AL833614, BG370341, BX648916
    Consensus CDS
    CCDS31794.1
    UniProtKB/Swiss-Prot
    Q86XZ4
    UniProtKB/TrEMBL
    A0A024R101
    Related
    ENSP00000448228.1, ENST00000553127.5
    Conserved Domains (1) summary
    pfam07139
    Location:81384
    DUF1387; Protein of unknown function (DUF1387)
  2. NM_001293286.1NP_001280215.1  spermatogenesis-associated serine-rich protein 2

    See identical proteins and their annotated locations for NP_001280215.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1, 2, and 3 encode the same protein.
    Source sequence(s)
    AK095582, BC048299, BG370341, BX648916
    Consensus CDS
    CCDS31794.1
    UniProtKB/Swiss-Prot
    Q86XZ4
    UniProtKB/TrEMBL
    A0A024R101
    Related
    ENSP00000326841.6, ENST00000321898.10
    Conserved Domains (1) summary
    pfam07139
    Location:81384
    DUF1387; Protein of unknown function (DUF1387)
  3. NM_023071.3NP_075559.2  spermatogenesis-associated serine-rich protein 2

    See identical proteins and their annotated locations for NP_075559.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2, and 3 encode the same protein.
    Source sequence(s)
    AB075515, AK023202, AK095582, CN421379, DB305045
    Consensus CDS
    CCDS31794.1
    UniProtKB/Swiss-Prot
    Q86XZ4
    UniProtKB/TrEMBL
    A0A024R101
    Related
    ENSP00000447947.1, ENST00000552918.5
    Conserved Domains (1) summary
    pfam07139
    Location:81384
    DUF1387; Protein of unknown function (DUF1387)

RNA

  1. NR_120663.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK095582, BC048299, BG370341, BX648916

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    49366905..49527441
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011538691.3XP_011536993.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    See identical proteins and their annotated locations for XP_011536993.1

    UniProtKB/Swiss-Prot
    Q86XZ4
    UniProtKB/TrEMBL
    A0A024R101
    Conserved Domains (1) summary
    pfam07139
    Location:81384
    DUF1387; Protein of unknown function (DUF1387)
  2. XM_017019840.2XP_016875329.1  spermatogenesis-associated serine-rich protein 2 isoform X2

    Conserved Domains (1) summary
    pfam07139
    Location:81384
    DUF1387; Protein of unknown function (DUF1387)
  3. XM_024449135.1XP_024304903.1  spermatogenesis-associated serine-rich protein 2 isoform X2

    Conserved Domains (1) summary
    pfam07139
    Location:81384
    DUF1387; Protein of unknown function (DUF1387)

RNA

  1. XR_002957371.1 RNA Sequence

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