U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 285696, updated on 22-Oct-2024

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See BASP1-AS1 in Genome Data Viewer
    Location:
    5p15.1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (17130028..17217422, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (17069388..17156801, complement)
    RS_2024_09 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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. LncRNA BASP1-AS1 is a positive regulator of stemness and pluripotency in human SH-SY5Y neuroblastoma cells. Krishna S, et al. Biochem Biophys Res Commun, 2024 Nov 12. PMID 39303525
    2. 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
    3. 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
    4. Genome-wide association of mood-incongruent psychotic bipolar disorder. Goes FS, et al. Transl Psychiatry, 2012 Oct 23. PMID 23092984, Free PMC Article
    5. 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

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LncRNA BASP1-AS1 is a positive regulator of stemness and pluripotency in human SH-SY5Y neuroblastoma cells.
      Title: LncRNA BASP1-AS1 is a positive regulator of stemness and pluripotency in human SH-SY5Y neuroblastoma cells.
    2. 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

    Go to the top of the page Help

    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

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Clone Names

    • FLJ34047, FLJ43202, AC091878.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_2024_08

    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials