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SPATA6 spermatogenesis associated 6 [ Homo sapiens (human) ]

Gene ID: 54558, updated on 17-Jun-2019

Summary

Official Symbol
SPATA6provided by HGNC
Official Full Name
spermatogenesis associated 6provided by HGNC
Primary source
HGNC:HGNC:18309
See related
Ensembl:ENSG00000132122 MIM:613947
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
HASH; SRF1; SRF-1
Expression
Broad expression in testis (RPKM 10.6), thyroid (RPKM 2.4) and 19 other tissues See more
Orthologs

Genomic context

See SPATA6 in Genome Data Viewer
Location:
1p33
Exon count:
21
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (48258643..48472208, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (48761044..48937876, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2794 Neighboring gene Skint1 like (pseudogene) Neighboring gene solute carrier family 5 member 9 Neighboring gene RNA, U6 small nuclear 723, pseudogene Neighboring gene protein phosphatase 1 regulatory subunit 8 pseudogene 1 Neighboring gene STE20 related adaptor beta pseudogene Neighboring gene RNA, U4 small nuclear 61, pseudogene Neighboring gene ribosomal protein L21 pseudogene 25 Neighboring gene ATP/GTP binding protein like 4 Neighboring gene BEN domain containing 5

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10007

Gene Ontology Provided by GOA

Function Evidence Code Pubs
myosin light chain binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
motile cilium assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
motile cilium assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
spermatogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
spermatogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
extracellular region IEA
Inferred from Electronic Annotation
more info
 
sperm connecting piece IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
sperm connecting piece ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
spermatogenesis-associated protein 6
Names
spermatogenesis-related factor-1
testicular tissue protein Li 178

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_001286238.2NP_001273167.1  spermatogenesis-associated protein 6 isoform 2

    See identical proteins and their annotated locations for NP_001273167.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site compared to variant 1. The encodes isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AL356968, AL359959, BC020660, BC040655
    Consensus CDS
    CCDS65535.1
    UniProtKB/Swiss-Prot
    Q9NWH7
    Related
    ENSP00000360909.3, ENST00000371843.7
    Conserved Domains (1) summary
    pfam14909
    Location:11149
    SPATA6; Spermatogenesis-assoc protein 6
  2. NM_001286239.1NP_001273168.1  spermatogenesis-associated protein 6 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an in-frame exon in the 5' coding region compared to variant 1. The encoded isoform(3) is shorter than isoform 1.
    Source sequence(s)
    AK301770, AL356968, AL359959, BC040655
    Consensus CDS
    CCDS72787.1
    UniProtKB/TrEMBL
    A8MU33, B4DX17
    Related
    ENSP00000379502.4, ENST00000396199.7
    Conserved Domains (1) summary
    pfam14909
    Location:11135
    SPATA6; Spermatogenesis-assoc protein 6
  3. NM_019073.4NP_061946.1  spermatogenesis-associated protein 6 isoform 1 precursor

    See identical proteins and their annotated locations for NP_061946.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK000869, AL356968, AL359959, BC040655
    Consensus CDS
    CCDS551.1
    UniProtKB/Swiss-Prot
    Q9NWH7
    UniProtKB/TrEMBL
    A0A140VJV1
    Related
    ENSP00000360913.3, ENST00000371847.8
    Conserved Domains (1) summary
    pfam14909
    Location:11149
    SPATA6; Spermatogenesis-assoc protein 6

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    48258643..48472208 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006710699.3XP_006710762.1  spermatogenesis-associated protein 6 isoform X2

    Conserved Domains (1) summary
    pfam14909
    Location:11149
    SPATA6; Spermatogenesis-assoc protein 6
  2. XM_017001511.2XP_016857000.1  spermatogenesis-associated protein 6 isoform X4

  3. XM_011541608.1XP_011539910.1  spermatogenesis-associated protein 6 isoform X7

    See identical proteins and their annotated locations for XP_011539910.1

    Conserved Domains (1) summary
    pfam14909
    Location:141
    SPATA6; Spermatogenesis-assoc protein 6
  4. XM_006710700.2XP_006710763.1  spermatogenesis-associated protein 6 isoform X9

  5. XM_017001510.1XP_016856999.1  spermatogenesis-associated protein 6 isoform X3

  6. XM_017001514.1XP_016857003.1  spermatogenesis-associated protein 6 isoform X8

  7. XM_017001515.1XP_016857004.1  spermatogenesis-associated protein 6 isoform X11

  8. XM_017001512.1XP_016857001.1  spermatogenesis-associated protein 6 isoform X7

    Conserved Domains (1) summary
    pfam14909
    Location:141
    SPATA6; Spermatogenesis-assoc protein 6
  9. XM_011541609.2XP_011539911.1  spermatogenesis-associated protein 6 isoform X7

    See identical proteins and their annotated locations for XP_011539911.1

    Conserved Domains (1) summary
    pfam14909
    Location:141
    SPATA6; Spermatogenesis-assoc protein 6
  10. XM_017001513.1XP_016857002.1  spermatogenesis-associated protein 6 isoform X7

    Conserved Domains (1) summary
    pfam14909
    Location:141
    SPATA6; Spermatogenesis-assoc protein 6
  11. XM_011541607.2XP_011539909.1  spermatogenesis-associated protein 6 isoform X6

  12. XM_011541606.2XP_011539908.1  spermatogenesis-associated protein 6 isoform X5

    See identical proteins and their annotated locations for XP_011539908.1

    Conserved Domains (1) summary
    pfam14909
    Location:11149
    SPATA6; Spermatogenesis-assoc protein 6
  13. XM_017001509.2XP_016856998.1  spermatogenesis-associated protein 6 isoform X1

  14. XM_006710701.4XP_006710764.1  spermatogenesis-associated protein 6 isoform X10

    Conserved Domains (1) summary
    pfam14909
    Location:11149
    SPATA6; Spermatogenesis-assoc protein 6

RNA

  1. XR_001737243.2 RNA Sequence

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