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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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See SOCS3-DT in Genome Data Viewer
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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