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    SOCS3-DT SOCS3 divergent transcript [ Homo sapiens (human) ]

    Gene ID: 101928674, updated on 10-Oct-2023

    Summary

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    Official Symbol
    SOCS3-DTprovided by HGNC
    Official Full Name
    SOCS3 divergent transcriptprovided by HGNC
    Primary source
    HGNC:HGNC:52799
    See related
    Ensembl:ENSG00000266970 AllianceGenome:HGNC:52799
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    Location:
    17q25.3
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (78360448..78373909)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (79253970..79267444)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (76356529..76369990)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76311214-76311972 Neighboring gene uncharacterized LOC105371912 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12890 Neighboring gene Sharpr-MPRA regulatory region 775 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76318420-76318963 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76320051-76320592 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76320593-76321136 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76321137-76321678 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9058 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9059 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9060 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76338363-76338868 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76340895-76341399 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9061 Neighboring gene uncharacterized LOC124904064 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76348009-76348824 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76348825-76349641 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76350661-76351162 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12891 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr17:76352361-76352860 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76352918-76353567 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9063 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:76355514-76356162 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9065 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9066 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9067 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76359520-76360097 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76361253-76361828 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76361829-76362406 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12892 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76368427-76368994 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76367859-76368426 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76374619-76375580 Neighboring gene RNA, 7SL, cytoplasmic 236, pseudogene Neighboring gene suppressor of cytokine signaling 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12893 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12894 Neighboring gene small nucleolar RNA SNORA30/SNORA37 family Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76396609-76397114 Neighboring gene phosphatidylglycerophosphate synthase 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76406789-76407334 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76407335-76407878 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12895 Neighboring gene Sharpr-MPRA regulatory region 14012 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76413655-76414163 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76415673-76416357 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76418631-76419210 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:76422505-76423005 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:76422004-76422504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76433212-76433840 Neighboring gene dynein axonemal heavy chain 17 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:76446189-76446410 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76446540-76447118 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76461956-76462618 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76463282-76463943 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12896 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12897 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12898 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12899 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12900 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9069 Neighboring gene DNAH17 antisense RNA 1 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr17:76489132-76490331 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76493472-76494020 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76494021-76494569

    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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    GeneRIFs: Gene References Into Functions

    Phenotypes

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    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

    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_110845.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AC061992
      Related
      ENST00000687996.2

    2. NR_110846.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks two exons and contains an alternate 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC061992

    3. NR_110847.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two exons and contains three alternate 3' exons, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC061992
      Related
      ENST00000592569.1

    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
      78360448..78373909
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      79253970..79267444
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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