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SPATA22 spermatogenesis associated 22 [ Homo sapiens (human) ]

Gene ID: 84690, updated on 5-Mar-2024

Summary

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Official Symbol
SPATA22provided by HGNC
Official Full Name
spermatogenesis associated 22provided by HGNC
Primary source
HGNC:HGNC:30705
See related
Ensembl:ENSG00000141255 MIM:617673; AllianceGenome:HGNC:30705
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
NYDSP20; NYD-SP20
Summary
Predicted to be involved in regulation of meiotic cell cycle. Predicted to act upstream of or within several processes, including fertilization; gamete generation; and meiosis I cell cycle process. Predicted to be located in chromosome. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward testis (RPKM 73.6) See more
Orthologs
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Genomic context

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Location:
17p13.2
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (3440019..3513858, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (3328922..3402768, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (3343313..3417152, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene olfactory receptor family 3 subfamily A member 3 Neighboring gene olfactory receptor family 1 subfamily E member 2 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr17:3386038-3386583 Neighboring gene aspartoacylase Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr17:3413293-3413831 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:3427509-3428008 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:3430899-3431819 Neighboring gene transient receptor potential cation channel subfamily V member 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8012 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:3457379-3457880 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8013 Neighboring gene H3K4me1 hESC enhancers GRCh37_chr17:3461306-3462122 and GRCh37_chr17:3462123-3462937 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11509 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11510 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:3466934-3467732 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr17:3478292-3479491 Neighboring gene transient receptor potential cation channel subfamily V member 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:3497604-3498104 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:3512595-3513096 Neighboring gene pterin-4 alpha-carbinolamine dehydratase 2 pseudogene Neighboring gene sedoheptulokinase

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. Bi-allelic SPATA22 variants cause premature ovarian insufficiency and nonobstructive azoospermia due to meiotic arrest. Yao C, et al. Clin Genet, 2022 May. PMID 35285020
  2. Novel development-related alternative splices in human testis identified by cDNA microarrays. Huang X, et al. J Androl, 2005 Mar-Apr. PMID 15713825
  3. Nuclear localization of human MEIOB requires its NLS in the OB domain and interaction with SPATA22. Xu Y, et al. Acta Biochim Biophys Sin (Shanghai), 2022 Nov 25. PMID 36331299, Free PMC Article
  4. Whole-exome sequencing of consanguineous families with infertile men and women identifies homologous mutations in SPATA22 and MEIOB. Wu Y, et al. Hum Reprod, 2021 Sep 18. PMID 34392356
  5. The meiosis-specific MEIOB-SPATA22 complex cooperates with RPA to form a compacted mixed MEIOB/SPATA22/RPA/ssDNA complex. Ribeiro J, et al. DNA Repair (Amst), 2021 Jun. PMID 33812231

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Nuclear localization of human MEIOB requires its NLS in the OB domain and interaction with SPATA22.
    Title: Nuclear localization of human MEIOB requires its NLS in the OB domain and interaction with SPATA22.
  2. Bi-allelic SPATA22 variants cause premature ovarian insufficiency and nonobstructive azoospermia due to meiotic arrest.
    Title: Bi-allelic SPATA22 variants cause premature ovarian insufficiency and nonobstructive azoospermia due to meiotic arrest.
  3. Whole-exome sequencing of consanguineous families with infertile men and women identifies homologous mutations in SPATA22 and MEIOB.
    Title: Whole-exome sequencing of consanguineous families with infertile men and women identifies homologous mutations in SPATA22 and MEIOB.
  4. The meiosis-specific MEIOB-SPATA22 complex cooperates with RPA to form a compacted mixed MEIOB/SPATA22/RPA/ssDNA complex.
    Title: The meiosis-specific MEIOB-SPATA22 complex cooperates with RPA to form a compacted mixed MEIOB/SPATA22/RPA/ssDNA complex.
  5. Data indicate that the positive expression of studied genes fertilization rate for GAPDHS positive subset was 66%, ACR - 71%, SPATA22 - 68%, MND1 - 70%, pregnancy rates were 8%, 6%, 18% and 36% respectively.
    Title: Expression analysis of MND1/GAJ, SPATA22, GAPDHS and ACR genes in testicular biopsies from non-obstructive azoospermia (NOA) patients.
  6. Observational study of gene-disease association. (HuGE Navigator)
    Title: Evaluation of 172 candidate polymorphisms for association with oligozoospermia or azoospermia in a large cohort of men of European descent.
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

EBI GWAS Catalog

Description
A genome-wide association study provides evidence for association of chromosome 8p23 (MYP10) and 10q21.1 (MYP15) with high myopia in the French Population.
EBI GWAS Catalog

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in fertilization IEA
Inferred from Electronic Annotation
more info
  
involved_in homologous chromosome pairing at meiosis IEA
Inferred from Electronic Annotation
more info
  
involved_in meiotic DNA repair synthesis IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of meiotic cell cycle IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in reproductive system development IEA
Inferred from Electronic Annotation
more info
  
involved_in spermatocyte division IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in chromosome ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
spermatogenesis-associated protein 22
Names
testicular tissue protein Li 186
testis development protein NYD-SP20

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_001170695.2 → NP_001164166.1  spermatogenesis-associated protein 22 isoform 2

    See identical proteins and their annotated locations for NP_001164166.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and contains an alternate exon which results in a frameshift, compared to variant 1. The resulting protein (isoform 2) is longer and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC025125, BC029483, BG716998
    Consensus CDS
    CCDS11027.1
    UniProtKB/Swiss-Prot
    B4DXB1, D3DTI9, J3KN63, Q8NHS9, Q969H3, Q96JT4
    UniProtKB/TrEMBL
    A0A140VJV9, B4DHW8
    Related
    ENSP00000459329.1, ENST00000575375.5

  2. NM_001170696.2 → NP_001164167.1  spermatogenesis-associated protein 22 isoform 3

    See identical proteins and their annotated locations for NP_001164167.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and has multiple coding region differences, compared to variant 1, one of which results in a frameshift. The resulting protein (isoform 3) has a distinct C-terminus and is longer than isoform 1.
    Source sequence(s)
    AC025125, AY032684, BG716998
    Consensus CDS
    CCDS54066.1
    UniProtKB/TrEMBL
    B4DHW8
    Related
    ENSP00000347541.4, ENST00000355380.8

  3. NM_001170697.2 → NP_001164168.1  spermatogenesis-associated protein 22 isoform 2

    See identical proteins and their annotated locations for NP_001164168.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and contains an alternate exon which results in a frameshift, compared to variant 1. The resulting protein (isoform 2) is longer and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC025125, AF367472, BP371122
    Consensus CDS
    CCDS11027.1
    UniProtKB/Swiss-Prot
    B4DXB1, D3DTI9, J3KN63, Q8NHS9, Q969H3, Q96JT4
    UniProtKB/TrEMBL
    A0A140VJV9, B4DHW8
    Related
    ENSP00000459580.1, ENST00000573128.5

  4. NM_001170698.2 → NP_001164169.1  spermatogenesis-associated protein 22 isoform 2

    See identical proteins and their annotated locations for NP_001164169.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and contains an alternate exon which results in a frameshift, compared to variant 1. The resulting protein (isoform 2) is longer and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC025125, AY035867, BI463957
    Consensus CDS
    CCDS11027.1
    UniProtKB/Swiss-Prot
    B4DXB1, D3DTI9, J3KN63, Q8NHS9, Q969H3, Q96JT4
    UniProtKB/TrEMBL
    A0A140VJV9, B4DHW8
    Related
    ENSP00000460187.1, ENST00000572969.6

  5. NM_001170699.2 → NP_001164170.1  spermatogenesis-associated protein 22 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the shortest isoform (1).
    Source sequence(s)
    AC025125, AK301892, BC029483, DB450733
    Consensus CDS
    CCDS54067.1
    UniProtKB/Swiss-Prot
    Q8NHS9
    Related
    ENSP00000268981.5, ENST00000268981.9

  6. NM_001321336.2 → NP_001308265.1  spermatogenesis-associated protein 22 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC025125, AK295299, AY035868, BC029483
    Consensus CDS
    CCDS82036.1
    UniProtKB/TrEMBL
    B4DHW8, F5GWB9
    Related
    ENSP00000441920.1, ENST00000541913.5

  7. NM_001321337.2 → NP_001308266.1  spermatogenesis-associated protein 22 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC025125, AK295299, AY035868, BC029483
    Consensus CDS
    CCDS11027.1
    UniProtKB/Swiss-Prot
    B4DXB1, D3DTI9, J3KN63, Q8NHS9, Q969H3, Q96JT4
    UniProtKB/TrEMBL
    A0A140VJV9, B4DHW8

  8. NM_032598.5 → NP_115987.2  spermatogenesis-associated protein 22 isoform 2

    See identical proteins and their annotated locations for NP_115987.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and contains an alternate exon which results in a frameshift, compared to variant 1. The resulting protein (isoform 2) is longer and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC025125, AY035868
    Consensus CDS
    CCDS11027.1
    UniProtKB/Swiss-Prot
    B4DXB1, D3DTI9, J3KN63, Q8NHS9, Q969H3, Q96JT4
    UniProtKB/TrEMBL
    A0A140VJV9, B4DHW8
    Related
    ENSP00000380354.3, ENST00000397168.7

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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    3440019..3513858 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    3328922..3402768 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8NHS9.2 GenPept UniProtKB/Swiss-Prot:Q8NHS9

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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