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TMEM161B-DT TMEM161B divergent transcript [ Homo sapiens (human) ]

Gene ID: 100505894, updated on 10-Oct-2023

Summary

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Official Symbol
TMEM161B-DTprovided by HGNC
Official Full Name
TMEM161B divergent transcriptprovided by HGNC
Primary source
HGNC:HGNC:43839
See related
Ensembl:ENSG00000247828 AllianceGenome:HGNC:43839
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TMEM161B-AS1; linc-POLR3G-8
Expression
Ubiquitous expression in brain (RPKM 2.9), kidney (RPKM 2.1) and 24 other tissues See more
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Genomic context

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Location:
5q14.3
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (88268882..88436674)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (88749932..88917732)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (87564699..87732491)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105379070 Neighboring gene OCT4 hESC enhancer GRCh37_chr5:87436892-87437393 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:87441563-87442343 Neighboring gene MPRA-validated peak5334 silencer Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:87484918-87486117 Neighboring gene transmembrane protein 161B Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:87552812-87553465 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:87564449-87564948 Neighboring gene RNA, 5S ribosomal pseudogene 187 Neighboring gene small nucleolar RNA SNORA70 Neighboring gene RPS3A pseudogene 22 Neighboring gene long intergenic non-protein coding RNA 2060 Neighboring gene CRE1 CAGE-defined tissue-specific enhancer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22756 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22757 Neighboring gene MIR9-2 host gene Neighboring gene H3 histone pseudogene 23 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:87955193-87955706 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:87955707-87956218 Neighboring gene NANOG hESC enhancer GRCh37_chr5:87956815-87957640 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:87959465-87960288 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:87960289-87961111 Neighboring gene microRNA 9-2

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. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Cabili MN, et al. Genes Dev, 2011 Sep 15. PMID 21890647, Free PMC Article
  2. TMEM161B-AS1 suppresses proliferation, invasion and glycolysis by targeting miR-23a-3p/HIF1AN signal axis in oesophageal squamous cell carcinoma. Shi Z, et al. J Cell Mol Med, 2021 Jul. PMID 34046994, Free PMC Article
  3. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. Brandenberger R, et al. Nat Biotechnol, 2004 Jun. PMID 15146197
  4. 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
  5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TMEM161B-AS1 suppresses proliferation, invasion and glycolysis by targeting miR-23a-3p/HIF1AN signal axis in oesophageal squamous cell carcinoma.
    Title: TMEM161B-AS1 suppresses proliferation, invasion and glycolysis by targeting miR-23a-3p/HIF1AN signal axis in oesophageal squamous cell carcinoma.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

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

  • CTC-358I24.1
  • TMEM161B antisense RNA 1 (non-protein coding)

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_039993.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This is variant 1.
    Source sequence(s)
    BC030122, BF056341, BM719684
    Related
    ENST00000501869.7

  2. NR_039994.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an alternate 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    BF056341, BF672668, HY089208
    Related
    ENST00000657972.3

  3. NR_039995.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    BF056341, BM719684, CN260565
    Related
    ENST00000504922.7

  4. NR_105019.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate 5' terminal exon and four additional internal exons, resulting in a longer transcript, compared to variant 1.
    Source sequence(s)
    AC016555, BC047059, BF056341, HY089208
    Related
    ENST00000501715.6

  5. NR_105020.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks two exons and contains an alternate 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    BF056341, DA317999, DA782199

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
    88268882..88436674
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    88749932..88917732
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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