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    SPATA21 spermatogenesis associated 21 [ Homo sapiens (human) ]

    Gene ID: 374955, updated on 10-Dec-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, Dec 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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 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)

    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

    Gene LinkOut

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

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