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Aliases for CLMAT3 Gene

Subcategory (RNA class) for CLMAT3 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for CLMAT3 Gene

  • Colorectal Liver Metastasis Associated Transcript 3 2 3 5
  • SPARC Antisense RNA 1 2 3
  • CTB-113P19.1 3
  • SPARC-AS1 3

External Ids for CLMAT3 Gene

Summaries for CLMAT3 Gene

GeneCards Summary for CLMAT3 Gene

CLMAT3 (Colorectal Liver Metastasis Associated Transcript 3) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for CLMAT3 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLMAT3 Gene

Genomics for CLMAT3 Gene

GeneHancer (GH) Regulatory Elements for CLMAT3 Gene

Promoters and enhancers for CLMAT3 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
GH05I151668 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 572.8 +1.4 1357 20 PKNOX1 SIN3A BMI1 RFX5 ZNF335 EGR1 SCRT2 RCOR1 FOS RUNX3 CLMAT3 SPARC LOC105378231 LOC105378235 RPLP1P6 G3BP1 ATOX1
GH05I151692 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 6.1 +19.9 19930 9.5 ARID4B THRB RARA SCRT2 FOS CREM THAP11 SP5 CEBPB MIER2 RPLP1P6 ATOX1 G3BP1 SPARC CLMAT3 LOC105378231 RN7SKP232
GH05I151706 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 5.8 +31.2 31206 2.7 HDAC1 ELF3 ATF1 FOXA2 NFRKB CEBPG E4F1 RARA YY1 FOSL1 SPARC CLMAT3 SLC36A3 RN7SKP232 ENSG00000272112
GH05I151702 Enhancer 1 Ensembl ENCODE dbSUPER 6 +25.8 25847 1.5 PKNOX1 NFIB JUNB EBF1 BATF ATF2 RELA GTF3C2 ZNF217 POLR3A RN7SKP232 CLMAT3 LOC105378231 SPARC
GH05I151658 Enhancer 1.2 Ensembl ENCODE dbSUPER 0.4 -16.8 -16795 3.2 ATF1 ZNF48 RAD21 ZNF143 FOS SMARCA5 ZNF654 RXRA REST ZNF592 LOC105378231 SPARC FAT2 CLMAT3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CLMAT3 on UCSC Golden Path with GeneCards custom track

Genomic Locations for CLMAT3 Gene

Genomic Locations for CLMAT3 Gene
chr5:151,676,945-151,724,782
(GRCh38/hg38)
Size:
47,838 bases
Orientation:
Plus strand
chr5:151,056,506-151,104,343
(GRCh37/hg19)

Genomic View for CLMAT3 Gene

Genes around CLMAT3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLMAT3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLMAT3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLMAT3 Gene

Proteins for CLMAT3 Gene

Post-translational modifications for CLMAT3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for CLMAT3 Gene

Domains & Families for CLMAT3 Gene

Gene Families for CLMAT3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CLMAT3: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for CLMAT3 Gene

Function for CLMAT3 Gene

Animal Model Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CLMAT3 Gene

Localization for CLMAT3 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for CLMAT3 Gene

Pathways & Interactions for CLMAT3 Gene

SuperPathways for CLMAT3 Gene

No Data Available

Interacting Proteins for CLMAT3 Gene

Gene Ontology (GO) - Biological Process for CLMAT3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for CLMAT3 Gene

Drugs & Compounds for CLMAT3 Gene

No Compound Related Data Available

Transcripts for CLMAT3 Gene

mRNA/cDNA for CLMAT3 Gene

(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for CLMAT3 Gene

No ASD Table

Relevant External Links for CLMAT3 Gene

GeneLoc Exon Structure for
CLMAT3
ECgene alternative splicing isoforms for
CLMAT3

Expression for CLMAT3 Gene

No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , 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 CLMAT3 Gene

Orthologs for CLMAT3 Gene

Evolution for CLMAT3 Gene

ENSEMBL:
Gene Tree for CLMAT3 (if available)
TreeFam:
Gene Tree for CLMAT3 (if available)

No data available for Orthologs for CLMAT3 Gene

Paralogs for CLMAT3 Gene

No data available for Paralogs for CLMAT3 Gene

Variants for CLMAT3 Gene

Sequence variations from dbSNP and Humsavar for CLMAT3 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000434093 -- 151,676,393(+) C/T upstream_transcript_variant
rs1000673656 -- 151,676,803(+) C/T upstream_transcript_variant
rs1000737970 -- 151,682,129(+) C/A intron_variant
rs1000897134 -- 151,681,272(+) C/T intron_variant
rs1001278819 -- 151,675,524(+) C/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CLMAT3 Gene

Variant ID Type Subtype PubMed ID
nsv1026176 CNV gain 25217958
nsv5069 CNV insertion 18451855

Additional Variant Information for CLMAT3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLMAT3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for CLMAT3 Gene

Disorders for CLMAT3 Gene

No disorders were found for CLMAT3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLMAT3 Gene

Publications for CLMAT3 Gene

  1. Aberrant expression of long noncoding RNAs in colorectal cancer with liver metastasis. (PMID: 26050227) Ye LC … Xu J (Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine 2015) 2 3 58
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3 58

Products for CLMAT3 Gene

Sources for CLMAT3 Gene

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