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SPATA9 spermatogenesis associated 9 [ Homo sapiens (human) ]

Gene ID: 83890, updated on 12-Oct-2019

Summary

Official Symbol
SPATA9provided by HGNC
Official Full Name
spermatogenesis associated 9provided by HGNC
Primary source
HGNC:HGNC:22988
See related
Ensembl:ENSG00000145757 MIM:608039
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
NYD-SP16
Expression
Biased expression in testis (RPKM 4.4), bone marrow (RPKM 0.8) and 5 other tissues See more
Orthologs

Genomic context

See SPATA9 in Genome Data Viewer
Location:
5q15
Exon count:
20
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (95652181..95732102, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (94987885..95018885, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112267933 Neighboring gene G protein-coupled receptor 150 Neighboring gene uncharacterized LOC105379090 Neighboring gene Rieske Fe-S domain containing Neighboring gene Rho related BTB domain containing 3 Neighboring gene heat shock protein family D (Hsp60) member 1 pseudogene 11 Neighboring gene glutaredoxin

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

Bibliography

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function.
NHGRI GWA Catalog

General gene information

Markers

Homology

Clone Names

  • FLJ35906

Gene Ontology Provided by GOA

Function Evidence Code Pubs
molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
biological_process ND
No biological Data available
more info
 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
spermatogenesis-associated protein 9
Names
CTD-2154I11.2
testicular tissue protein Li 179
testis development protein NYD-SP16

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_001349303.2NP_001336232.1  spermatogenesis-associated protein 9 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC008840, HM005492
    Conserved Domains (1) summary
    pfam15824
    Location:1224
    SPATA9; Spermatogenesis-associated protein 9
  2. NM_031952.4NP_114158.2  spermatogenesis-associated protein 9 isoform 1

    See identical proteins and their annotated locations for NP_114158.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer isoform (1).
    Source sequence(s)
    BC047333, BQ013593
    Consensus CDS
    CCDS4076.1
    UniProtKB/Swiss-Prot
    Q9BWV2
    UniProtKB/TrEMBL
    A0A140VJV2
    Related
    ENSP00000274432.8, ENST00000274432.13
    Conserved Domains (1) summary
    pfam15824
    Location:1252
    SPATA9; Spermatogenesis-associated protein 9

RNA

  1. NR_125327.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate internal exon, and contains multiple alternate 3' exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC008547, AK292338, AY027526
  2. NR_125328.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an alternate internal exon, and contains multiple alternate 3' exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC008547, AK093225, AK310260, BC047333
  3. NR_125329.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) lacks an alternate internal exon, and contains multiple alternate 3' exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK093225, BC032832, BC047333, BQ013593
  4. NR_125330.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks two consecutive alternate internal exons, and contains multiple alternate 3' exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC008547, AK093225, AK292338

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_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    95652181..95732102 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017009948.1XP_016865437.1  spermatogenesis-associated protein 9 isoform X1

    UniProtKB/Swiss-Prot
    Q9BWV2
    UniProtKB/TrEMBL
    A0A140VJV2
    Related
    ENSP00000325491.8, ENST00000316087.12
    Conserved Domains (1) summary
    pfam15824
    Location:1252
    SPATA9; Spermatogenesis-associated protein 9
  2. XM_024446229.1XP_024301997.1  spermatogenesis-associated protein 9 isoform X2

    Conserved Domains (1) summary
    pfam15824
    Location:5242
    SPATA9; Spermatogenesis-associated protein 9
  3. XM_017009949.2XP_016865438.1  spermatogenesis-associated protein 9 isoform X2

    Conserved Domains (1) summary
    pfam15824
    Location:5242
    SPATA9; Spermatogenesis-associated protein 9
  4. XM_011543666.1XP_011541968.1  spermatogenesis-associated protein 9 isoform X5

    See identical proteins and their annotated locations for XP_011541968.1

    UniProtKB/Swiss-Prot
    Q9BWV2
    Related
    ENSP00000427257.1, ENST00000477715.5
    Conserved Domains (1) summary
    pfam15824
    Location:1176
    SPATA9; Spermatogenesis-associated protein 9
  5. XM_011543664.1XP_011541966.1  spermatogenesis-associated protein 9 isoform X3

    Conserved Domains (1) summary
    pfam15824
    Location:4235
    SPATA9; Spermatogenesis-associated protein 9
  6. XM_024446230.1XP_024301998.1  spermatogenesis-associated protein 9 isoform X4

    Conserved Domains (1) summary
    pfam15824
    Location:1190
    SPATA9; Spermatogenesis-associated protein 9
  7. XM_017009951.1XP_016865440.1  spermatogenesis-associated protein 9 isoform X6

    Conserved Domains (1) summary
    pfam15824
    Location:22148
    SPATA9; Spermatogenesis-associated protein 9
  8. XM_011543667.2XP_011541969.1  spermatogenesis-associated protein 9 isoform X6

    Conserved Domains (1) summary
    pfam15824
    Location:22148
    SPATA9; Spermatogenesis-associated protein 9

RNA

  1. XR_001742295.1 RNA Sequence

  2. XR_001742296.1 RNA Sequence

  3. XR_002956184.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_173361.1: Suppressed sequence

    Description
    NM_173361.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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