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BCDIN3D-AS1 BCDIN3D antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 100286844, updated on 10-Oct-2023

Summary

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Official Symbol
BCDIN3D-AS1provided by HGNC
Official Full Name
BCDIN3D antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:44113
See related
Ensembl:ENSG00000258057 AllianceGenome:HGNC:44113
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 brain (RPKM 2.2), prostate (RPKM 2.2) and 25 other tissues See more
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Genomic context

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Location:
12q13.12
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (49828543..49841154)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (49791557..49804166)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (50222326..50234937)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6333 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6334 Neighboring gene LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:50184530-50185372 Neighboring gene NCK associated protein 5 like Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:50195140-50195640 Neighboring gene nuclear-encoded mitochondrial tRNA-Gln (TTG) 6-1 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr12:50218728-50219594 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr12:50219595-50220461 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6335 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:50222070-50222648 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:50222649-50223227 Neighboring gene Sharpr-MPRA regulatory region 4864 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6336 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6337 Neighboring gene BCDIN3 domain containing RNA methyltransferase Neighboring gene ribosomal protein L35a pseudogene 28 Neighboring gene Fas apoptotic inhibitory molecule 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:50280844-50281632 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr12:50281633-50282421 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:50282422-50283210 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:50288891-50289470

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 meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture. Berndt SI, et al. Nat Genet, 2013 May. PMID 23563607, Free PMC Article
  2. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. Wang AG, et al. Biochem Biophys Res Commun, 2006 Jul 7. PMID 16712791
  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
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

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 meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
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

General gene information

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Markers

Other Names

  • BCDIN3D antisense RNA 1 (non-protein coding)

Clone Names

  • FLJ30580

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_027499.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AC131157, BC014925, DA122615
    Related
    ENST00000548872.5

  2. NR_027500.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate donor splice site in the 5' exon and lacks a segment in the 3' region, compared to variant 1.
    Source sequence(s)
    AC131157, AI193197, BC014925, CB153643

  3. NR_027501.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate donor splice site in the 5' exon and is shorter, compared to variant 1.
    Source sequence(s)
    AC131157, BC014925, CB153643

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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    49828543..49841154
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    49791557..49804166
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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