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

    Gene ID: 65244, updated on 2-Nov-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, Nov 2024]
    Expression
    Broad expression in testis (RPKM 13.8), lymph node (RPKM 6.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SPATS2 in Genome Data Viewer
    Location:
    12q13.12
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (49366852..49527425)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (49329105..49489669)
    RS_2024_09 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 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. 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
    2. 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
    3. 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
    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. Identification of a novel protein p59(scr), which is expressed at specific stages of mouse spermatogenesis. Senoo M, et al. Biochem Biophys Res Commun, 2002 Apr 12. PMID 11944913

    See all (65) 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_2024_08

    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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