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    TINCR TINCR ubiquitin domain containing [ Homo sapiens (human) ]

    Gene ID: 257000, updated on 7-Apr-2024

    Summary

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    Official Symbol
    TINCRprovided by HGNC
    Official Full Name
    TINCR ubiquitin domain containingprovided by HGNC
    Primary source
    HGNC:HGNC:14607
    See related
    Ensembl:ENSG00000223573 MIM:615241; AllianceGenome:HGNC:14607
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TUBL; PLAC2; LINC00036; NCRNA00036; onco-lncRNA-16
    Summary
    This gene produces a spliced long non-coding RNA that binds RNAs. This transcript interacts with staufen-1 protein to regulate the stability of mRNAs for genes involved in the differentiation of epidermal tissue. Variation in this gene may be associated with cancer progression. [provided by RefSeq, Aug 2017]
    Expression
    Biased expression in skin (RPKM 41.2), placenta (RPKM 9.2) and 1 other tissue See more
    Orthologs
    mouse all
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    Genomic context

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    See TINCR in Genome Data Viewer
    Location:
    19p13.3
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (5558167..5567953, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (5544852..5554635, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (5558178..5567964, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc and ring finger 4 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_51701 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:5477057-5477274 Neighboring gene uncharacterized LOC124904622 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr19:5498934-5499766 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_51717 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:5512941-5513440 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_51725 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:5526673-5527573 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:5536495-5537158 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:5537159-5537822 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:5560556-5561352 Neighboring gene Sharpr-MPRA regulatory regions 733 and 12449 Neighboring gene SNRPE pseudogene 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:5589167-5589789 Neighboring gene scaffold attachment factor B2 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:5611821-5613020 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_51744 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:5621326-5622058 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9924 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:5622792-5623524

    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. The long noncoding RNA TINCR promotes self-renewal of human liver cancer stem cells through autophagy activation. Shi J, et al. Cell Death Dis, 2022 Nov 16. PMID 36385098, Free PMC Article
    2. pTINCR microprotein promotes epithelial differentiation and suppresses tumor growth through CDC42 SUMOylation and activation. Boix O, et al. Nat Commun, 2022 Nov 11. PMID 36369429, Free PMC Article
    3. Genetic predisposition to papillary thyroid carcinoma is mediated by a long non-coding RNA TINCR enhancer polymorphism. Wang Q, et al. Int Immunopharmacol, 2022 Aug. PMID 35489191
    4. The lncRNA Tincr Regulates the Abnormal Differentiation of Intestinal Epithelial Stem Cells in the Diabetic State Via the miR-668-3p/Klf3 Axis. Sun LB, et al. Curr Stem Cell Res Ther, 2023. PMID 35362387
    5. Expression of lncRNA TINCR in the placenta of patients with pre-eclampsia and its effect on the biological behaviours of trophoblasts. Qin L, et al. Zygote, 2022 Feb. PMID 34176530

    See all (66) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Long non-coding RNA TINCR suppresses growth and epithelial-mesenchymal transition by inhibiting Wnt/beta-catenin signaling pathway in human pancreatic cancer PANC-1 cells: Insights from in vitro and in vivo studies.
      Title: Long non-coding RNA TINCR suppresses growth and epithelial-mesenchymal transition by inhibiting Wnt/β-catenin signaling pathway in human pancreatic cancer PANC-1 cells: Insights from in vitro and in vivo studies.
    2. The potential roles of lncRNA TINCR in triple negative breast cancer.
      Title: The potential roles of lncRNA TINCR in triple negative breast cancer.
    3. The lncRNA Tincr Regulates the Abnormal Differentiation of Intestinal Epithelial Stem Cells in the Diabetic State Via the miR-668-3p/Klf3 Axis.
      Title: The lncRNA Tincr Regulates the Abnormal Differentiation of Intestinal Epithelial Stem Cells in the Diabetic State Via the miR-668-3p/Klf3 Axis.
    4. LncRNA TINCR impairs the efficacy of immunotherapy against breast cancer by recruiting DNMT1 and downregulating MiR-199a-5p via the STAT1-TINCR-USP20-PD-L1 axis.
      Title: LncRNA TINCR impairs the efficacy of immunotherapy against breast cancer by recruiting DNMT1 and downregulating MiR-199a-5p via the STAT1-TINCR-USP20-PD-L1 axis.
    5. The long noncoding RNA TINCR promotes self-renewal of human liver cancer stem cells through autophagy activation.
      Title: The long noncoding RNA TINCR promotes self-renewal of human liver cancer stem cells through autophagy activation.
    6. pTINCR microprotein promotes epithelial differentiation and suppresses tumor growth through CDC42 SUMOylation and activation.
      Title: pTINCR microprotein promotes epithelial differentiation and suppresses tumor growth through CDC42 SUMOylation and activation.
    7. IncRNA PLAC2 Upregulates CDK6 by Directly Targeting miR-29C to Promote Cell Proliferation in Lung Squamous Cell Carcinoma.
      Title: IncRNA PLAC2 Upregulates CDK6 by Directly Targeting miR-29C to Promote Cell Proliferation in Lung Squamous Cell Carcinoma.
    8. Genetic predisposition to papillary thyroid carcinoma is mediated by a long non-coding RNA TINCR enhancer polymorphism.
      Title: Genetic predisposition to papillary thyroid carcinoma is mediated by a long non-coding RNA TINCR enhancer polymorphism.
    9. Expression of SOX2OT, DANCR and TINCR long noncoding RNAs in papillary thyroid cancer and its effects on clinicopathological features.
      Title: Expression of SOX2OT, DANCR and TINCR long non‑coding RNAs in papillary thyroid cancer and its effects on clinicopathological features.
    10. Long non-coding RNA terminal differentiation-induced non-coding RNA regulates cisplatin resistance of choroidal melanoma by positively modulating extracellular signal-regulated kinase 2 via sponging microRNA-19b-3p.
      Title: Long non-coding RNA terminal differentiation-induced non-coding RNA regulates cisplatin resistance of choroidal melanoma by positively modulating extracellular signal-regulated kinase 2 via sponging microRNA-19b-3p.
    Submit: New GeneRIF Correction See all GeneRIFs (52)

    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ90734

    General protein information

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    Preferred Names
    TINCR ubiquitin domain containing
    Names
    TINCR-encoded ubiquitin-like protein
    long intergenic non-protein coding RNA 36
    placenta-specific 2 (non-protein coding)
    terminal differentiation-induced ncRNA
    tissue differentiation-inducing non-protein coding RNA

    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.

    mRNA and Protein(s)

    1. NM_001396408.1 → NP_001383337.1  TINCR ubiquitin domain containing isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC011533
      Consensus CDS
      CCDS92495.1
      UniProtKB/TrEMBL
      A0A1B0GVN0
      Related
      ENSP00000490584.1, ENST00000448587.6
      Conserved Domains (1) summary
      cl28922
      Location:16 → 83
      Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold

    2. NM_001396409.1 → NP_001383338.1  TINCR ubiquitin domain containing isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC011533
      Consensus CDS
      CCDS92496.1
      UniProtKB/Swiss-Prot
      A0A2R8Y7D0
      Related
      ENSP00000496189.1, ENST00000646160.1
      Conserved Domains (1) summary
      cl28922
      Location:16 → 83
      Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      5558167..5567953 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      5544852..5554635 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_153375.1: Suppressed sequence

      Description
      NM_153375.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version

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