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

Gene ID: 65244, updated on 5-Mar-2024

Summary

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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; AllianceGenome:HGNC:18650
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
Summary
Enables RNA binding activity. Located in cytosol. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis (RPKM 13.8), lymph node (RPKM 6.7) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
12q13.12
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (49366852..49527425)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (49329105..49489669)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (49761245..49921208)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:49729567-49730366 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4429 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4430 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:49736353-49736864 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4431 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4432 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4433 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:49741370-49742313 Neighboring gene complement C1q like 4 Neighboring gene DnaJ heat shock protein family (Hsp40) member C22 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6314 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4435 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4436 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6315 Neighboring gene FGFR1 oncogene partner 2 pseudogene Neighboring gene Sharpr-MPRA regulatory region 14813 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:49846952-49847452 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:49873095-49873682 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:49907610-49907788 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4438 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:49932121-49932932 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:49932933-49933742 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6316 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:49936243-49937442 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:49941330-49942138 Neighboring gene uncharacterized LOC105369761 Neighboring gene potassium voltage-gated channel subfamily H member 3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:49961221-49962024 Neighboring gene microspherule protein 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

Bibliography

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Related articles in PubMed

  1. SPATS2 is correlated with cell cycle progression and immune cells infiltration in hepatocellular carcinoma. Lin J, et al. BMC Gastroenterol, 2023 Jan 11. PMID 36631750, Free PMC Article
  2. Comprehensive evaluation of SPATS2 expression and its prognostic potential in liver cancer. Xing J, et al. Medicine (Baltimore), 2020 Feb. PMID 32118724, Free PMC Article
  3. Microarray analysis of bisphenol A-induced changes in gene expression in human oral epithelial cells. Seki K, et al. Acta Biochim Biophys Sin (Shanghai), 2007 Nov. PMID 17989879
  4. SPATS2, negatively regulated by miR-145-5p, promotes hepatocellular carcinoma progression through regulating cell cycle. Dong G, et al. Cell Death Dis, 2020 Oct 9. PMID 33037180, Free PMC Article
  5. SPATS2 is positively activated by long noncoding RNA SNHG5 via regulating DNMT3a expression to promote hepatocellular carcinoma progression. Yan J, et al. PLoS One, 2022. PMID 35077478, Free PMC Article

See all (59) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SPATS2 is correlated with cell cycle progression and immune cells infiltration in hepatocellular carcinoma.
    Title: SPATS2 is correlated with cell cycle progression and immune cells infiltration in hepatocellular carcinoma.
  2. SPATS2 is positively activated by long noncoding RNA SNHG5 via regulating DNMT3a expression to promote hepatocellular carcinoma progression.
    Title: SPATS2 is positively activated by long noncoding RNA SNHG5 via regulating DNMT3a expression to promote hepatocellular carcinoma progression.
  3. SPATS2, negatively regulated by miR-145-5p, promotes hepatocellular carcinoma progression through regulating cell cycle.
    Title: SPATS2, negatively regulated by miR-145-5p, promotes hepatocellular carcinoma progression through regulating cell cycle.
  4. Gene Set Enrichment Analysis (GSEA) was used to identify signaling pathways related to SPATS2 expression. SPATS2 expression could be a novel diagnostic and prognostic biomarker in liver cancer.
    Title: Comprehensive evaluation of SPATS2 expression and its prognostic potential in liver cancer.
  5. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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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

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ13117

Gene Ontology Provided by GOA

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

General protein information

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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)

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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_001293285.2 → NP_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
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8
    Related
    ENSP00000448228.1, ENST00000553127.5
    Conserved Domains (1) summary
    pfam07139
    Location:81 → 384
    DUF1387; Protein of unknown function (DUF1387)

  2. NM_001293286.2 → NP_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
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8
    Related
    ENSP00000326841.6, ENST00000321898.10
    Conserved Domains (1) summary
    pfam07139
    Location:81 → 384
    DUF1387; Protein of unknown function (DUF1387)

  3. NM_023071.4 → NP_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, AC009246, AK023202, AK095582, CN421379, DB305045
    Consensus CDS
    CCDS31794.1
    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8
    Related
    ENSP00000447947.2, ENST00000552918.6
    Conserved Domains (1) summary
    pfam07139
    Location:81 → 384
    DUF1387; Protein of unknown function (DUF1387)

RNA

  1. NR_120663.2 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: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    49366852..49527425
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047429409.1 → XP_047285365.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  2. XM_047429412.1 → XP_047285368.1  spermatogenesis-associated serine-rich protein 2 isoform X3

  3. XM_011538691.4 → XP_011536993.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    See identical proteins and their annotated locations for XP_011536993.1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8
    Conserved Domains (1) summary
    pfam07139
    Location:81 → 384
    DUF1387; Protein of unknown function (DUF1387)

  4. XM_047429407.1 → XP_047285363.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  5. XM_047429405.1 → XP_047285361.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  6. XM_017019840.3 → XP_016875329.1  spermatogenesis-associated serine-rich protein 2 isoform X3

    Conserved Domains (1) summary
    pfam07139
    Location:81 → 384
    DUF1387; Protein of unknown function (DUF1387)

  7. XM_047429406.1 → XP_047285362.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  8. XM_047429408.1 → XP_047285364.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  9. XM_047429404.1 → XP_047285360.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  10. XM_024449135.2 → XP_024304903.1  spermatogenesis-associated serine-rich protein 2 isoform X3

    Conserved Domains (1) summary
    pfam07139
    Location:81 → 384
    DUF1387; Protein of unknown function (DUF1387)

  11. XM_047429414.1 → XP_047285370.1  spermatogenesis-associated serine-rich protein 2 isoform X4

    UniProtKB/TrEMBL
    F8VS10
    Related
    ENSP00000448459.1, ENST00000549412.5

  12. XM_047429415.1 → XP_047285371.1  spermatogenesis-associated serine-rich protein 2 isoform X4

    UniProtKB/TrEMBL
    F8VS10

  13. XM_047429413.1 → XP_047285369.1  spermatogenesis-associated serine-rich protein 2 isoform X4

    UniProtKB/TrEMBL
    F8VS10

  14. XM_047429410.1 → XP_047285366.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  15. XM_047429411.1 → XP_047285367.1  spermatogenesis-associated serine-rich protein 2 isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    49329105..49489669
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054372986.1 → XP_054228961.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  2. XM_054372988.1 → XP_054228963.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  3. XM_054372992.1 → XP_054228967.1  spermatogenesis-associated serine-rich protein 2 isoform X3

  4. XM_054372984.1 → XP_054228959.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  5. XM_054372982.1 → XP_054228957.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  6. XM_054372990.1 → XP_054228965.1  spermatogenesis-associated serine-rich protein 2 isoform X3

  7. XM_054372983.1 → XP_054228958.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  8. XM_054372985.1 → XP_054228960.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  9. XM_054372981.1 → XP_054228956.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  10. XM_054372991.1 → XP_054228966.1  spermatogenesis-associated serine-rich protein 2 isoform X3

  11. XM_054372994.1 → XP_054228969.1  spermatogenesis-associated serine-rich protein 2 isoform X4

    UniProtKB/TrEMBL
    F8VS10

  12. XM_054372995.1 → XP_054228970.1  spermatogenesis-associated serine-rich protein 2 isoform X4

    UniProtKB/TrEMBL
    F8VS10

  13. XM_054372993.1 → XP_054228968.1  spermatogenesis-associated serine-rich protein 2 isoform X4

    UniProtKB/TrEMBL
    F8VS10

  14. XM_054372987.1 → XP_054228962.1  spermatogenesis-associated serine-rich protein 2 isoform X1

    UniProtKB/Swiss-Prot
    A8K8G9, Q86XZ4, Q9H7D4, Q9H8Y7, Q9H8Z8

  15. XM_054372989.1 → XP_054228964.1  spermatogenesis-associated serine-rich protein 2 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86XZ4.1 GenPept UniProtKB/Swiss-Prot:Q86XZ4

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