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SPATA21 spermatogenesis associated 21 [ Homo sapiens (human) ]

Gene ID: 374955, updated on 2-Nov-2024

Summary

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Official Symbol
SPATA21provided by HGNC
Official Full Name
spermatogenesis associated 21provided by HGNC
Primary source
HGNC:HGNC:28026
See related
Ensembl:ENSG00000187144 AllianceGenome:HGNC:28026
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
spergen2; spergen-2
Summary
Predicted to enable calcium ion binding activity. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in fat (RPKM 12.4), duodenum (RPKM 11.2) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See SPATA21 in Genome Data Viewer
Location:
1p36.13
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (16395677..16437842, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (15837210..15879521, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (16722172..16763919, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene F-box protein 42 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:16678240-16679014 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:16686958-16687174 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 261 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 262 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 263 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 264 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:16706517-16707018 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:16707019-16707518 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:16712076-16712576 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:16712577-16713077 Neighboring gene ribosomal protein L22 pseudogene 3 Neighboring gene SUZ RNA binding domain containing 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:16719513-16720419 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:16727910-16728085 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:16764649-16764819 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 265 Neighboring gene NECAP endocytosis associated 2 Neighboring gene long intergenic non-protein coding RNA 1772 Neighboring gene CROCC pseudogene 3

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. Dynamics of cullin-RING ubiquitin ligase network revealed by systematic quantitative proteomics. Bennett EJ, et al. Cell, 2010 Dec 10. PMID 21145461, Free PMC Article
  2. RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination. Choudhury NR, et al. BMC Biol, 2017 Nov 8. PMID 29117863, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC27074

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
spermatogenesis-associated protein 21

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_001353349.1 → NP_001340278.1  spermatogenesis-associated protein 21 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AY327405, BC150598
    Consensus CDS
    CCDS85935.1
    Related
    ENSP00000440046.1, ENST00000540400.1
    Conserved Domains (2) summary
    cd00051
    Location:203 → 262
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    cl27427
    Location:56 → 144
    AccB; Biotin carboxyl carrier protein [Coenzyme transport and metabolism, Lipid transport and metabolism]

  2. NM_198546.1 → NP_940948.1  spermatogenesis-associated protein 21 isoform 1

    See identical proteins and their annotated locations for NP_940948.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AY327405
    Consensus CDS
    CCDS172.1
    UniProtKB/Swiss-Prot
    B9EK40, F5GXP5, Q7Z572
    Related
    ENSP00000335612.1, ENST00000335496.5
    Conserved Domains (1) summary
    cd00051
    Location:226 → 285
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

RNA

  1. NR_148413.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AK128106, AL358794, AY327405
    Related
    ENST00000466212.5

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    16395677..16437842 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011541407.4 → XP_011539709.1  spermatogenesis-associated protein 21 isoform X1

    See identical proteins and their annotated locations for XP_011539709.1

    Conserved Domains (1) summary
    cd00051
    Location:452 → 511
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

  2. XM_047419694.1 → XP_047275650.1  spermatogenesis-associated protein 21 isoform X4

  3. XM_017001218.2 → XP_016856707.1  spermatogenesis-associated protein 21 isoform X2

  4. XM_011541417.3 → XP_011539719.1  spermatogenesis-associated protein 21 isoform X3

    Conserved Domains (2) summary
    PTZ00184
    Location:449 → 496
    PTZ00184; calmodulin; Provisional
    PHA03247
    Location:159 → 384
    PHA03247; large tegument protein UL36; Provisional

RNA

  1. XR_946645.2 RNA Sequence

  2. XR_001737156.2 RNA Sequence

  3. XR_946646.4 RNA Sequence

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_025791756.1 Reference GRCh38.p14 PATCHES

    Range
    199818..242105 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054332804.1 → XP_054188779.1  spermatogenesis-associated protein 21 isoform X1

  2. XM_054332807.1 → XP_054188782.1  spermatogenesis-associated protein 21 isoform X4

  3. XM_054332805.1 → XP_054188780.1  spermatogenesis-associated protein 21 isoform X2

  4. XM_054332806.1 → XP_054188781.1  spermatogenesis-associated protein 21 isoform X3

RNA

  1. XR_008485795.1 RNA Sequence

  2. XR_008485794.1 RNA Sequence

  3. XR_008485796.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    15837210..15879521 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054336442.1 → XP_054192417.1  spermatogenesis-associated protein 21 isoform X1

  2. XM_054336445.1 → XP_054192420.1  spermatogenesis-associated protein 21 isoform X4

  3. XM_054336443.1 → XP_054192418.1  spermatogenesis-associated protein 21 isoform X2

  4. XM_054336444.1 → XP_054192419.1  spermatogenesis-associated protein 21 isoform X3

RNA

  1. XR_008486037.1 RNA Sequence

  2. XR_008486036.1 RNA Sequence

  3. XR_008486038.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7Z572.3 GenPept UniProtKB/Swiss-Prot:Q7Z572

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