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    CRNDE colorectal neoplasia differentially expressed [ Homo sapiens (human) ]

    Gene ID: 643911, updated on 2-Nov-2024

    Summary

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    Official Symbol
    CRNDEprovided by HGNC
    Official Full Name
    colorectal neoplasia differentially expressedprovided by HGNC
    Primary source
    HGNC:HGNC:37078
    See related
    Ensembl:ENSG00000245694 MIM:615624; AllianceGenome:HGNC:37078
    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
    CRNDEP; PNAS-108; lincIRX5; LINC00180; NCRNA00180
    Summary
    This gene is transcribed into multiple transcript variants, some of which may function as non-coding RNAs. One of the transcript variants encodes a putative short protein that is localized to the nucleus (PMID:25978564). Expression of this locus is increased in proliferating tissues, including certain tumors such as colorectal adenomas and adenocarcinomas. Transcription from this gene is negatively regulated by insulin and insulin-like growth factors, and may regulate the expression of genes involved in metabolism. [provided by RefSeq, May 2015]
    Expression
    Biased expression in testis (RPKM 14.7), lung (RPKM 2.1) and 8 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CRNDE in Genome Data Viewer
    Location:
    16q12.2
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (54918863..54928886, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (60716970..60726999, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (54952775..54962798, complement)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927480 Neighboring gene uncharacterized LOC105371275 Neighboring gene uncharacterized LOC105371276 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7503 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7504 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7505 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7506 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:54965529-54966728 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:54968431-54969182 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:54969183-54969932 Neighboring gene uncharacterized LOC124903692 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:54970502-54971064 Neighboring gene iroquois homeobox 5

    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. High expression of lnc-CRNDE presents as a biomarker for acute myeloid leukemia and promotes the malignant progression in acute myeloid leukemia cell line U937. Wang Y, et al. Eur Rev Med Pharmacol Sci, 2018 Feb. PMID 29461608
    2. Long non-coding RNA-CRNDE: a novel regulator of tumor growth and angiogenesis in hepatoblastoma. Dong R, et al. Oncotarget, 2017 Jun 27. PMID 28178668, Free PMC Article
    3. The mechanism of lncRNA-CRNDE in regulating tumour-associated macrophage M2 polarization and promoting tumour angiogenesis. Han C, et al. J Cell Mol Med, 2021 May. PMID 33742511, Free PMC Article
    4. The long non-coding RNA CRNDE regulates growth of multiple myeloma cells via an effect on IL6 signalling. David A, et al. Leukemia, 2021 Jun. PMID 32879426, Free PMC Article
    5. LncRNA CRNDE Promotes the Progression of B-cell Precursor Acute Lymphoblastic Leukemia by Targeting the miR-345-5p/CREB Axis. Wang W, et al. Mol Cells, 2020 Aug 31. PMID 32868489, Free PMC Article

    See all (92) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. METTL3 mediates m6A modification of lncRNA CRNDE to promote ATG10 expression and improve brain ischemia/reperfusion injury through YTHDC1.
      Title: METTL3 mediates m6A modification of lncRNA CRNDE to promote ATG10 expression and improve brain ischemia/reperfusion injury through YTHDC1.
    2. A comprehensive review of lncRNA CRNDE in cancer progression and pathology, with a specific glance at the epithelial-mesenchymal transition (EMT) process.
      Title: A comprehensive review of lncRNA CRNDE in cancer progression and pathology, with a specific glance at the epithelial-mesenchymal transition (EMT) process.
    3. LncRNA CRNDE is downregulated and associated with poor prognostic markers in chronic lymphocytic leukemia.
      Title: LncRNA CRNDE is downregulated and associated with poor prognostic markers in chronic lymphocytic leukemia.
    4. CRNDE: A Pivotal Oncogenic Long Non-Coding RNA in Cancers.
      Title: CRNDE: A Pivotal Oncogenic Long Non-Coding RNA in Cancers.
    5. Knockdown of the Long Noncoding RNA CRNDE Ameliorates Apoptosis and Inflammation in Ischemia-Reperfusion-Induced Brain Injury via the mir-489-3p/FOXO3 Pathway.
      Title: Knockdown of the Long Noncoding RNA CRNDE Ameliorates Apoptosis and Inflammation in Ischemia-Reperfusion-Induced Brain Injury via the mir-489-3p/FOXO3 Pathway.
    6. CRNDE mediated hnRNPA2B1 stability facilitates nuclear export and translation of KRAS in colorectal cancer.
      Title: CRNDE mediated hnRNPA2B1 stability facilitates nuclear export and translation of KRAS in colorectal cancer.
    7. The Dual Functions of Non-Coding RNA CRNDE in Different Tumors.
      Title: The Dual Functions of Non-Coding RNA CRNDE in Different Tumors.
    8. LncRNA colorectal neoplasia differentially expressed promotes glycolysis of liver cancer cells by regulating hypoxia-inducible factor 1alpha.
      Title: LncRNA colorectal neoplasia differentially expressed promotes glycolysis of liver cancer cells by regulating hypoxia-inducible factor 1α.
    9. Comprehensive Analysis of the Prognostic Value and Molecular Function of CRNDE in Glioma at Bulk and Single-Cell Levels.
      Title: Comprehensive Analysis of the Prognostic Value and Molecular Function of CRNDE in Glioma at Bulk and Single-Cell Levels.
    10. Silencing of lncRNA CRNDE attenuates nonsmall-cell lung cancer progression by mediating the miR-455-3p/HDAC2 axis.
      Title: Silencing of lncRNA CRNDE attenuates nonsmall-cell lung cancer progression by mediating the miR-455-3p/HDAC2 axis.
    Submit: New GeneRIF Correction See all GeneRIFs (85)

    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Other Names

    • colorectal neoplasia differentially expressed (non-protein coding)
    • long intergenic non-protein coding RNA 180

    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_034105.4 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1, also known as h) is the reference variant.
      Source sequence(s)
      BM974647, DB455235, FJ466685
      Related
      ENST00000558031.8

    2. NR_034106.3 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2, also known as g) differs in the 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC106738, BF692451, BM974647, FJ466685

    3. NR_110453.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3, also known as c1a) contains an alternate internal exon, resulting in a longer transcript, compared to variant 1.
      Source sequence(s)
      BM974647, DB446128, DB455235, FJ466685
      Related
      ENST00000560912.7

    4. NR_110454.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4, also known as i1b) differs in the 5' terminal exon and uses an alternate splice site at an internal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC106738, BF692451, BM974647, CV575277

    5. NR_170995.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC106738, AC108084

    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_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      54918863..54928886 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      60716970..60726999 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001308963.2: Suppressed sequence

      Description
      NM_001308963.2: This RefSeq was removed because it is now thought that this gene does not encode a protein.
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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