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SH3BP5-AS1 SH3BP5 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 100505696, updated on 10-Oct-2023

Summary

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Official Symbol
SH3BP5-AS1provided by HGNC
Official Full Name
SH3BP5 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:44501
See related
Ensembl:ENSG00000224660 AllianceGenome:HGNC:44501
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
Ubiquitous expression in adrenal (RPKM 45.6), fat (RPKM 24.4) and 24 other tissues See more
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Genomic context

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See SH3BP5-AS1 in Genome Data Viewer
Location:
3p25.1
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (15254184..15264498)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (15256590..15266904)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (15295691..15306005)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene collagen type VI alpha 4 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19527 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14101 Neighboring gene calpain 7 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:15309450-15309989 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:15309990-15310528 Neighboring gene SH3 domain binding protein 5 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:15310708-15311907 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:15329844-15330019 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19530 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14103 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14104 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14105 Neighboring gene RNA, U6 small nuclear 454, pseudogene

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. Genome-wide association study of alcohol dependence implicates KIAA0040 on chromosome 1q. Zuo L, et al. Neuropsychopharmacology, 2012 Jan. PMID 21956439, Free PMC Article
  2. Genome-wide search for replicable risk gene regions in alcohol and nicotine co-dependence. Zuo L, et al. Am J Med Genet B Neuropsychiatr Genet, 2012 Jun. PMID 22488850, Free PMC Article
  3. N(6)-Methyladenosine on mRNA facilitates a phase-separated nuclear body that suppresses myeloid leukemic differentiation. Cheng Y, et al. Cancer Cell, 2021 Jul 12. PMID 34048709, Free PMC Article
  4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study of alcohol dependence implicates KIAA0040 on chromosome 1q.
EBI GWAS Catalog
Genome-wide search for replicable risk gene regions in alcohol and nicotine co-dependence.
EBI GWAS Catalog

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Clone Names

  • AC087590.3

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_046084.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087590, AL133111, BM684368, CA447289
    Related
    ENST00000420195.1

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    15254184..15264498
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    15256590..15266904
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases