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BASP1-AS1 BASP1 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 285696, updated on 10-Oct-2023

Summary

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Official Symbol
BASP1-AS1provided by HGNC
Official Full Name
BASP1 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:26609
See related
Ensembl:ENSG00000215196 AllianceGenome:HGNC:26609
Gene type
ncRNA
RefSeq status
PREDICTED
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 BASP1-AS1 in Genome Data Viewer
Location:
5p15.1
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (17130028..17217422, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (17069388..17156801, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (17130137..17217531, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr5:16951303-16951587 Neighboring gene RNA, U6 small nuclear 660, pseudogene Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:16994519-16995071 Neighboring gene NANOG hESC enhancer GRCh37_chr5:17066008-17066589 Neighboring gene uncharacterized LOC124900947 Neighboring gene Sharpr-MPRA regulatory region 7707 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:17140500-17141038 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:17141039-17141575 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:17145813-17146647 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:17151192-17152159 Neighboring gene uncharacterized LOC105374664 Neighboring gene RNA, 5S ribosomal pseudogene 180 Neighboring gene Sharpr-MPRA regulatory region 6771 Neighboring gene microRNA 10522 Neighboring gene Sharpr-MPRA regulatory region 14227 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15948 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15949 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15950 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:17218860-17219640 Neighboring gene DDB1 and CUL4 associated factor 13 pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:17227689-17228189 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22424 Neighboring gene RNA, U6 small nuclear 1003, pseudogene Neighboring gene brain abundant membrane attached signal protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15951 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:17275743-17276243 Neighboring gene BASP1-FTH1P10 intergenic CAGE-defined low expression enhancer Neighboring gene aurora kinase A interacting protein 1 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. LncRNA BASP1-AS1 interacts with YBX1 to regulate Notch transcription and drives the malignancy of melanoma. Li Y, et al. Cancer Sci, 2021 Nov. PMID 34533860, Free PMC Article
  2. Functional prediction of long non-coding RNAs in ovarian cancer-associated fibroblasts indicate a potential role in metastasis. Vafaee F, et al. Sci Rep, 2017 Sep 4. PMID 28871211, Free PMC Article
  3. Genome-wide association of mood-incongruent psychotic bipolar disorder. Goes FS, et al. Transl Psychiatry, 2012 Oct 23. PMID 23092984, Free PMC Article
  4. Hippocampal atrophy as a quantitative trait in a genome-wide association study identifying novel susceptibility genes for Alzheimer's disease. Potkin SG, et al. PLoS One, 2009 Aug 7. PMID 19668339, Free PMC Article
  5. High-throughput analyses of hnRNP H1 dissects its multi-functional aspect. Uren PJ, et al. RNA Biol, 2016. PMID 26760575, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA BASP1-AS1 interacts with YBX1 to regulate Notch transcription and drives the malignancy of melanoma.
    Title: LncRNA BASP1-AS1 interacts with YBX1 to regulate Notch transcription and drives the malignancy of melanoma.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association of mood-incongruent psychotic bipolar disorder.
EBI GWAS Catalog
Hippocampal atrophy as a quantitative trait in a genome-wide association study identifying novel susceptibility genes for Alzheimer's disease.
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

  • FLJ34047, FLJ43202, AC091878.1

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_027253.1 RNA Sequence

    Status: PREDICTED

    Source sequence(s)
    AC091878, AK091366
    Related
    ENST00000399760.2

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    17130028..17217422 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    17069388..17156801 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_173669.1: Suppressed sequence

    Description
    NM_173669.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein
Heading Accession and Version

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