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 th... See more...

Aliases for CRNDE Gene

Aliases for CRNDE Gene

  • Colorectal Neoplasia Differentially Expressed 2 3 5
  • Colorectal Neoplasia Differentially Expressed (Non-Protein Coding) 2 3
  • Long Intergenic Non-Protein Coding RNA 180 2 3
  • Colorectal Neoplasia Differentially Expressed Peptide 3
  • HSALNG0111610 167
  • NONHSAG019499 92
  • NONHSAG019500 92
  • NONHSAG019497 92
  • HSALNG0111608 167
  • Lnc-IRX3-80 168
  • NCRNA00180 3
  • LINC00180 3
  • PNAS-108 3
  • LincIRX5 3
  • CRNDEP 3

External Ids for CRNDE Gene

Previous GeneCards Identifiers for CRNDE Gene

  • GC16M053512
  • GC16M054953
  • GC16M040838

Summaries for CRNDE Gene

Entrez Gene Summary for CRNDE Gene

  • 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]

GeneCards Summary for CRNDE Gene

CRNDE (Colorectal Neoplasia Differentially Expressed) is a Protein Coding gene. Diseases associated with CRNDE include Childhood Medulloblastoma and Hepatoblastoma.

Additional gene information for CRNDE Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CRNDE Gene

Genomics for CRNDE Gene

GeneHancer (GH) Regulatory Elements for CRNDE Gene

Promoters and enhancers for CRNDE Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH16J054926 Promoter/Enhancer 1.9 Ensembl ENCODE CraniofacialAtlas dbSUPER 7.9 -3.1 -3111 14.2 HNRNPK ZNF217 NRF1 USF1 SP1 RBAK PHF8 JUND TEAD4 SIX5 IRX5 IRX3 CRNDE ENSG00000259711 ENSG00000259725
GH16J054922 Enhancer 0.5 dbSUPER 7.6 +6.0 5958 0.9 OSR2 GATA3 PBX2 PRDM10 PKNOX1 SP7 CRNDE LOC105371275
GH16J054923 Promoter/Enhancer 0.7 Ensembl dbSUPER 0.7 +4.8 4788 1.2 OSR2 GATA3 PRDM6 CRNDE LOC105371275
GH16J054921 Enhancer 1 UCNEbase dbSUPER 0.4 +7.8 7822 0.3 EP300 ATF2 OSR2 WT1 FOS KLF8 OVOL3 IKZF3 ZNF843 PRDM6 CRNDE LOC105371275
GH16J054873 Enhancer 0.6 Ensembl 0.2 +55.7 55688 1 TAF9B ZNF282 CREB3L1 POLR2H ELF1 SUPT5H EP400 TAF1 ELF4 TAF7 KR153194-065 LOC105371275 LOC101927480 CRNDE
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CRNDE on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CRNDE

Genomic Locations for CRNDE Gene

Genomic Locations for CRNDE Gene
chr16:54,845,189-54,929,189
(GRCh38/hg38)
Size:
84,001 bases
Orientation:
Minus strand
chr16:54,952,775-54,963,101
(GRCh37/hg19)
Size:
10,327 bases
Orientation:
Minus strand

Genomic View for CRNDE Gene

Genes around CRNDE on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CRNDE Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CRNDE Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CRNDE Gene

Proteins for CRNDE Gene

Post-translational modifications for CRNDE Gene

No Post-translational modifications

Other Protein References for CRNDE Gene

No data available for DME Specific Peptides for CRNDE Gene

Domains & Families for CRNDE Gene

Gene Families for CRNDE Gene

genes like me logo Genes that share domains with CRNDE: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CRNDE Gene

Function for CRNDE Gene

Phenotypes From GWAS Catalog for CRNDE Gene

Phenotypes for CRNDE Gene

genes like me logo Genes that share phenotypes with CRNDE: view

miRNA for CRNDE Gene

miRTarBase miRNAs that target CRNDE

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CRNDE Gene

Localization for CRNDE Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CRNDE gene
Compartment Confidence
nucleus 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
cytosol 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for CRNDE Gene

Pathways & Interactions for CRNDE Gene

PathCards logo

SuperPathways for CRNDE Gene

No Data Available

Interacting Proteins for CRNDE Gene

;

Gene Ontology (GO) - Biological Process for CRNDE Gene

None

No data available for Pathways by source and SIGNOR curated interactions for CRNDE Gene

Drugs & Compounds for CRNDE Gene

No Compound Related Data Available

Transcripts for CRNDE Gene

mRNA/cDNA for CRNDE Gene

1 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
24 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
84 RNACentral transcripts :
18 NONCODE transcripts :
39 LncBook transcripts :
66 LNCipedia transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for CRNDE Gene

No ASD Table

Relevant External Links for CRNDE Gene

GeneLoc Exon Structure for
CRNDE

Expression for CRNDE Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CRNDE Gene

mRNA differential expression in normal tissues according to GTEx for CRNDE Gene

This gene is overexpressed in Testis (x10.7).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CRNDE

SOURCE GeneReport for Unigene cluster for CRNDE Gene:

Hs.237396
genes like me logo Genes that share expression patterns with CRNDE: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for CRNDE Gene

Orthologs for CRNDE Gene

Evolution for CRNDE Gene

ENSEMBL:
Gene Tree for CRNDE (if available)
TreeFam:
Gene Tree for CRNDE (if available)

No data available for Orthologs for CRNDE Gene

Paralogs for CRNDE Gene

No data available for Paralogs for CRNDE Gene

Variants for CRNDE Gene

Additional dbSNP identifiers (rs#s) for CRNDE Gene

Structural Variations from Database of Genomic Variants (DGV) for CRNDE Gene

Variant ID Type Subtype PubMed ID
nsv827657 CNV gain 20364138

Additional Variant Information for CRNDE Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CRNDE

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for CRNDE Gene

Disorders for CRNDE Gene

MalaCards: The human disease database

(16) MalaCards diseases for CRNDE Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
childhood medulloblastoma
  • pediatric medulloblastoma
hepatoblastoma
malignant glioma
  • glial cell tumor
thyroid cancer, nonmedullary, 1
  • nmtc1
gallbladder cancer
  • gallbladder ca
- elite association - COSMIC cancer census association via MalaCards
Search CRNDE in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CRNDE

genes like me logo Genes that share disorders with CRNDE: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CRNDE Gene

Publications for CRNDE Gene

  1. The Novel Gene CRNDE Encodes a Nuclear Peptide (CRNDEP) Which Is Overexpressed in Highly Proliferating Tissues. (PMID: 25978564) Szafron LM … Kupryjanczyk J (PloS one 2015) 2 3 54
  2. Multiple knockout mouse models reveal lincRNAs are required for life and brain development. (PMID: 24381249) Sauvageau M … Rinn JL (eLife 2013) 2 3 54
  3. CRNDE: A Long Non-Coding RNA Involved in CanceR, Neurobiology, and DEvelopment. (PMID: 23226159) Ellis BC … Graham LD (Frontiers in genetics 2012) 2 3 54
  4. lncRNA Colorectal Neoplasia Differentially Expressed (CRNDE) Promotes Proliferation and Inhibits Apoptosis in Non-Small Cell Lung Cancer Cells by Regulating the miR-641/CDK6 Axis. (PMID: 30982057) Fan YF … Cui XY (Medical science monitor : international medical journal of experimental and clinical research 2019) 3 54
  5. The prognostic role of long noncoding RNA CRNDE in cancer patients: a systematic review and meta-analysis. (PMID: 30509091) Wang W … Xu J (Neoplasma 2019) 3 54

Products for CRNDE Gene

Sources for CRNDE Gene