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SKAP1-AS2 SKAP1 antisense RNA 2 [ Homo sapiens (human) ]

Gene ID: 105371807, updated on 10-Oct-2023

Summary

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Official Symbol
SKAP1-AS2provided by HGNC
Official Full Name
SKAP1 antisense RNA 2provided by HGNC
Primary source
HGNC:HGNC:55570
See related
Ensembl:ENSG00000235300 AllianceGenome:HGNC:55570
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
BTR; THRA1/BTR
Expression
Low expression observed in reference dataset See more
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Genomic context

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See SKAP1-AS2 in Genome Data Viewer
Location:
17q21.32
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (48294347..48307829)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (49157790..49171272)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (46371709..46385191)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene src kinase associated phosphoprotein 1 Neighboring gene RNA, U6 small nuclear 1152, pseudogene Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr17:46296699-46297541 Neighboring gene LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12328 Neighboring gene Sharpr-MPRA regulatory region 12941 Neighboring gene small nucleolar RNA U3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12329 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12330 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8651 Neighboring gene uncharacterized LOC101927166

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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Related articles in PubMed

  1. Mutation analysis of the THRA1 gene in breast cancer: deletion/fusion of the gene to a novel sequence on 17q in the BT474 cell line. Futreal PA, et al. Cancer Res, 1994 Apr 1. PMID 7511052
  2. Creation of genome-wide protein expression libraries using random activation of gene expression. Harrington JJ, et al. Nat Biotechnol, 2001 May. PMID 11329013
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

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

General gene information

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Other Names

  • BT474 transcribed rearrangement
  • thyroid hormone receptor alpha

Clone Names

  • AC090627.1

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_131239.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC090627, BG185647, BG197541, DA697253, S71020

  2. NR_131240.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal exon, compared to variant 1.
    Source sequence(s)
    AC090627, BG185647, BG197541, S71020
    Related
    ENST00000421610.2

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
    48294347..48307829
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    49157790..49171272
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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