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SOX1-OT SOX1 overlapping transcript [ Homo sapiens (human) ]

Gene ID: 100505996, updated on 23-Nov-2021

Summary

Official Symbol
SOX1-OTprovided by HGNC
Official Full Name
SOX1 overlapping transcriptprovided by HGNC
Primary source
HGNC:HGNC:42733
See related
Ensembl:ENSG00000224243
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
LINC00403
Expression
Biased expression in brain (RPKM 2.9), salivary gland (RPKM 0.8) and 1 other tissue See more
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Genomic context

See SOX1-OT in Genome Data Viewer
Location:
13q34
Exon count:
5
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 13 NC_000013.11 (111972310..112108015)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (112626624..112762329)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724510 Neighboring gene long intergenic non-protein coding RNA 354 Neighboring gene peptidyl-prolyl cis-trans isomerase CYP95-like Neighboring gene SRY-box transcription factor 1 Neighboring gene uncharacterized LOC100506016 Neighboring gene uncharacterized LOC105370370

Genomic regions, transcripts, and products

Expression

  • 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

General gene information

Markers

Other Names

  • long intergenic non-protein coding RNA 403

Clone Names

  • FLJ30583, FLJ33739

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_120392.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AI693652, BQ184460, DA195709
  2. NR_120394.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks multiple 5' exons and contains an alternate 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AL356961
    Related
    ENST00000421423.1

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p13 Primary Assembly

    Range
    111972310..112108015
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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