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    SPATA41 spermatogenesis associated 41 [ Homo sapiens (human) ]

    Gene ID: 388182, updated on 17-Sep-2024

    Summary

    Official Symbol
    SPATA41provided by HGNC
    Official Full Name
    spermatogenesis associated 41provided by HGNC
    Primary source
    HGNC:HGNC:48613
    See related
    Ensembl:ENSG00000189419 AllianceGenome:HGNC:48613
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    HSD47
    Expression
    Biased expression in testis (RPKM 2.7), liver (RPKM 0.6) and 11 other tissues See more
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    Genomic context

    See SPATA41 in Genome Data Viewer
    Location:
    15q26.3
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (100344457..100350718, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (98101463..98107725, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (100884662..100890923, complement)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:100515897-100516492 Neighboring gene uncharacterized LOC105371022 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:100516493-100517088 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:100521898-100522876 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:100523855-100524832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100532449-100532963 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100532964-100533477 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:100537785-100538412 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100538413-100539040 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100539041-100539668 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100542118-100542966 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 17 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:100556815-100558014 Neighboring gene Sharpr-MPRA regulatory region 8829 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100624491-100624991 Neighboring gene RNA, 5S ribosomal pseudogene 402 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100648765-100649612 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:100651166-100652365 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr15:100663469-100664668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10166 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10165 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6876 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100739855-100740621 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100740622-100741387 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100742159-100742696 Neighboring gene Sharpr-MPRA regulatory region 9518 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:100781303-100782502 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100805303-100805804 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:100819145-100819835 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:100849823-100850322 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:100880514-100881032 Neighboring gene uncharacterized LOC105371021 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10167 Neighboring gene CERS3 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10168 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10169 Neighboring gene ceramide synthase 3 Neighboring gene MPRA-validated peak2453 silencer Neighboring gene RNA, U6 small nuclear 322, pseudogene Neighboring gene PRKX pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Other Names

    • spermatogenesis associated 41 (non-protein coding)

    Clone Names

    • FLJ32974, FLJ42289

    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.

    RNA

    1. NR_028139.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AC015723, AK057536, AK124283, BC028144, DB060272
      Related
      ENST00000662214.1
    2. NR_028140.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks three alternate segments, compared to variant 1.
      Source sequence(s)
      AC015723, AK057536, BC028144, DB060272
      Related
      ENST00000558307.1

    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_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      100344457..100350718 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      98101463..98107725 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_207383.2: Suppressed sequence

      Description
      NM_207383.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.