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HOXB-AS3 HOXB cluster antisense RNA 3 [ Homo sapiens (human) ]

Gene ID: 404266, updated on 10-Oct-2023

Summary

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Official Symbol
HOXB-AS3provided by HGNC
Official Full Name
HOXB cluster antisense RNA 3provided by HGNC
Primary source
HGNC:HGNC:40283
See related
Ensembl:ENSG00000233101 AllianceGenome:HGNC:40283
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
Biased expression in kidney (RPKM 9.1), colon (RPKM 5.3) and 13 other tissues See more
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Genomic context

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See HOXB-AS3 in Genome Data Viewer
Location:
17q21.32
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (48590420..48606414)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (49454010..49470007)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (46667782..46683776)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene homeobox B3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46659314-46660126 Neighboring gene HOXB associated long intergenic non-coding RNA Neighboring gene microRNA 10a Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12333 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8654 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46671071-46671578 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46671579-46672084 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46673127-46673798 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12335 Neighboring gene homeobox B5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12336 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8655 Neighboring gene homeobox B6 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8656 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12337 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46684881-46685426 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46687251-46688071 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46688072-46688891 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46688892-46689712 Neighboring gene homeobox B7 Neighboring gene homeobox B8

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 HOXB-AS3 promotes growth, invasion and migration of epithelial ovarian cancer by altering glycolysis. Xu S, et al. Life Sci, 2021 Jan 1. PMID 33148416
  2. lncRNA HOXB-AS3 exacerbates proliferation, migration, and invasion of lung cancer via activating the PI3K-AKT pathway. Jiang W, et al. J Cell Physiol, 2020 Oct. PMID 32039488
  3. Long non-coding RNA HOXB-AS3 promotes myeloid cell proliferation and its higher expression is an adverse prognostic marker in patients with acute myeloid leukemia and myelodysplastic syndrome. Huang HH, et al. BMC Cancer, 2019 Jun 24. PMID 31234830, Free PMC Article
  4. A micro-peptide encoded by HOXB-AS3 promotes the proliferation and viability of oral squamous cell carcinoma cell lines by directly binding with IGF2BP2 to stabilize c-Myc. Leng F, et al. Oncol Lett, 2021 Oct. PMID 34457052, Free PMC Article
  5. Highly conserved and cis-acting lncRNAs produced from paralogous regions in the center of HOXA and HOXB clusters in the endoderm lineage. Degani N, et al. PLoS Genet, 2021 Jul. PMID 34280202, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Alternative splicing of HOXB-AS3 underlie the promoting effect of nuclear m6A reader YTHDC1 on the self-renewal of leukemic stem cells in acute myeloid leukemia.
    Title: Alternative splicing of HOXB-AS3 underlie the promoting effect of nuclear m6A reader YTHDC1 on the self-renewal of leukemic stem cells in acute myeloid leukemia.
  2. Highly conserved and cis-acting lncRNAs produced from paralogous regions in the center of HOXA and HOXB clusters in the endoderm lineage.
    Title: Highly conserved and cis-acting lncRNAs produced from paralogous regions in the center of HOXA and HOXB clusters in the endoderm lineage.
  3. Long non-coding RNA (lncRNA) HOXB-AS3 promotes cell proliferation and inhibits apoptosis by regulating ADAM9 expression through targeting miR-498-5p in endometrial carcinoma.
    Title: Long non-coding RNA (lncRNA) HOXB-AS3 promotes cell proliferation and inhibits apoptosis by regulating ADAM9 expression through targeting miR-498-5p in endometrial carcinoma.
  4. lncRNA HOXB-AS3 exacerbates proliferation, migration, and invasion of lung cancer via activating the PI3K-AKT pathway.
    Title: lncRNA HOXB-AS3 exacerbates proliferation, migration, and invasion of lung cancer via activating the PI3K-AKT pathway.
  5. LncRNA HOXB-AS3 promotes growth, invasion and migration of epithelial ovarian cancer by altering glycolysis.
    Title: LncRNA HOXB-AS3 promotes growth, invasion and migration of epithelial ovarian cancer by altering glycolysis.
  6. Data suggest that in the context of nucleophosmin 1 (NPM1) mutations, the long non-coding RNA HOXB-AS3 (HOXB-AS3) overexpression acts as a compensatory mechanism, which allows adequate protein production in leukemic blasts.
    Title: The long non-coding RNA HOXB-AS3 regulates ribosomal RNA transcription in NPM1-mutated acute myeloid leukemia.
  7. Highly expressed HOXB-AS3 was confirmed to promote the proliferation of hepatocellular carcinoma cells and inhibit apoptosis, and the mechanism was related to the regulatory role of HOXB-AS3 in p53 expression by binding to DNMT1 promoter.
    Title: lncRNA HOXB-AS3 promotes hepatoma by inhibiting p53 expression.
  8. This study uncovers a promoting role of HOXB-AS3 in myeloid malignancies and identifies the prognostic value of HOXB-AS3 expression in acute myeloid leukemia and myelodysplastic syndromepatients, particularly in the lower-risk group.
    Title: Long non-coding RNA HOXB-AS3 promotes myeloid cell proliferation and its higher expression is an adverse prognostic marker in patients with acute myeloid leukemia and myelodysplastic syndrome.
  9. A peptide encoded by a putative lncRNA HOXB-AS3 suppresses colon cancer growth.
    Title: A Peptide Encoded by a Putative lncRNA HOXB-AS3 Suppresses Colon Cancer Growth.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide association meta-analysis identifies new childhood obesity loci.
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

Other Names

  • HOXB cluster antisense RNA 3 (non-protein coding)

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of pre-miRNA processing IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein stabilization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of RNA splicing IMP
Inferred from Mutant Phenotype
more info
 PubMed 

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_033201.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) is the reference transcript.
    Source sequence(s)
    BC010732, CF127739, DA741273, W39335
    Related
    ENST00000467155.6

  2. NR_033202.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two exons and contains two alternate 3' exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AA299267, BG196429, BG203609, DA741273
    Related
    ENST00000480872.5

  3. NR_033203.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    BG196429, CB046509
    Related
    ENST00000429755.8

  4. NR_033204.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an exon and contains an alternate 5' exon, resulting in a shorter transcript, comapred to variant 1.
    Source sequence(s)
    BC010732, BF431268, CB046509
    Related
    ENST00000487849.7

  5. NR_033205.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains an alternate exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    BG196429, BG203124, BG203609
    Related
    ENST00000481995.5

  6. NR_110329.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains an alternate exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC103702
    Related
    ENST00000492897.3

  7. NR_110330.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) contains an alternate exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    BG196429, BG203124, BG217847
    Related
    ENST00000474324.1

  8. NR_110331.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) contains an alternate exon structure, resulting in a longer transcript, compared to variant 1.
    Source sequence(s)
    BG196429, DA741273

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
    48590420..48606414
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    49454010..49470007
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
C0HLZ6.1 GenPept UniProtKB/Swiss-Prot:C0HLZ6

Gene LinkOut

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Molecular Biology Databases
Research Materials