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Aliases for HCCAT5 Gene

Subcategory (RNA class) for HCCAT5 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for HCCAT5 Gene

  • Hepatocellular Carcinoma Associated Transcript 5 (Non-Protein Coding) 2 3 5
  • Hepatoma Associated Protein 3
  • Hepatoma Associated Gene 2
  • FJ222407 3
  • HTA 3

External Ids for HCCAT5 Gene

Previous GeneCards Identifiers for HCCAT5 Gene

  • GC16P073128

Summaries for HCCAT5 Gene

GeneCards Summary for HCCAT5 Gene

HCCAT5 (Hepatocellular Carcinoma Associated Transcript 5 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with HCCAT5 include Wilson-Turner X-Linked Mental Retardation Syndrome.

Additional gene information for HCCAT5 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 HCCAT5 Gene

Genomics for HCCAT5 Gene

GeneHancer (GH) Regulatory Elements for HCCAT5 Gene

Promoters and enhancers for HCCAT5 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
GH16I073091 Enhancer 1 ENCODE dbSUPER 550.8 +0.8 758 2.3 ELF3 FOXA2 ZNF2 RARA RFX5 ZNF335 RCOR1 KLF13 MIXL1 KLF11 HCCAT5 ENSG00000284675 ZFHX3
GH16I073092 Enhancer 0.3 dbSUPER 550.8 -0.9 -857 0.7 ZNF548 HCCAT5 DHX38 GC16P073065 ZFHX3
GH16I073095 Enhancer 0.9 dbSUPER 0.8 +4.1 4113 1.5 FEZF1 ZNF2 BRCA1 ZNF213 FOS REST TSHZ1 ZNF518A ZNF610 GLIS1 C16orf47 ZFHX3 HCCAT5 ENSG00000284675
GH16I073082 Enhancer 1.2 Ensembl ENCODE dbSUPER 0.4 -9.6 -9608 1.4 RAD21 BRCA1 RFX5 GTF3C2 POLR3A ZSCAN5C RCOR1 FOS CEBPB ZEB2 C16orf47 ZFHX3 HCCAT5 GC16P073065
GH16I073122 Enhancer 0.8 FANTOM5 Ensembl ENCODE 0.3 +30.7 30712 1.5 PRDM10 ZBTB20 ENSG00000284675 ZFHX3 HCCAT5
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HCCAT5 on UCSC Golden Path with GeneCards custom track

Genomic Locations for HCCAT5 Gene

Genomic Locations for HCCAT5 Gene
chr16:73,092,349-73,099,337
(GRCh38/hg38)
Size:
6,989 bases
Orientation:
Plus strand
chr16:73,126,248-73,127,673
(GRCh37/hg19)

Genomic View for HCCAT5 Gene

Genes around HCCAT5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HCCAT5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HCCAT5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HCCAT5 Gene

Proteins for HCCAT5 Gene

Post-translational modifications for HCCAT5 Gene

No Post-translational modifications

No data available for DME Specific Peptides for HCCAT5 Gene

Domains & Families for HCCAT5 Gene

Suggested Antigen Peptide Sequences for HCCAT5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains and UniProtKB/Swiss-Prot for HCCAT5 Gene

Function for HCCAT5 Gene

Phenotypes for HCCAT5 Gene

GenomeRNAi human phenotypes for HCCAT5:
genes like me logo Genes that share phenotypes with HCCAT5: view

Animal Model Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for HCCAT5 Gene

Localization for HCCAT5 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 HCCAT5 gene
Compartment Confidence
extracellular 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 HCCAT5 Gene

Pathways & Interactions for HCCAT5 Gene

SuperPathways for HCCAT5 Gene

No Data Available

Interacting Proteins for HCCAT5 Gene

Gene Ontology (GO) - Biological Process for HCCAT5 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for HCCAT5 Gene

Drugs & Compounds for HCCAT5 Gene

No Compound Related Data Available

Transcripts for HCCAT5 Gene

mRNA/cDNA for HCCAT5 Gene

(1) REFSEQ mRNAs :
(2) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for HCCAT5 Gene

No ASD Table

Relevant External Links for HCCAT5 Gene

GeneLoc Exon Structure for
HCCAT5
ECgene alternative splicing isoforms for
HCCAT5

Expression for HCCAT5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HCCAT5 Gene

mRNA differential expression in normal tissues according to GTEx for HCCAT5 Gene

This gene is overexpressed in Artery - Tibial (x13.3), Brain - Spinal cord (cervical c-1) (x8.5), Artery - Aorta (x7.9), and Artery - Coronary (x5.2).

NURSA nuclear receptor signaling pathways regulating expression of HCCAT5 Gene:

HCCAT5
genes like me logo Genes that share expression patterns with HCCAT5: view

Primer Products

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 HCCAT5 Gene

Orthologs for HCCAT5 Gene

Evolution for HCCAT5 Gene

ENSEMBL:
Gene Tree for HCCAT5 (if available)
TreeFam:
Gene Tree for HCCAT5 (if available)

No data available for Orthologs for HCCAT5 Gene

Paralogs for HCCAT5 Gene

No data available for Paralogs for HCCAT5 Gene

Variants for HCCAT5 Gene

Sequence variations from dbSNP and Humsavar for HCCAT5 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1001108047 -- 73,092,491(+) G/A/T non_coding_transcript_variant
rs1002105594 -- 73,091,136(+) G/A upstream_transcript_variant
rs1002666217 -- 73,093,641(+) C/T non_coding_transcript_variant
rs1002849626 -- 73,091,125(+) G/C upstream_transcript_variant
rs1003186657 -- 73,092,485(+) A/G non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for HCCAT5 Gene

Variant ID Type Subtype PubMed ID
nsv7285 OTHER inversion 18451855

Additional Variant Information for HCCAT5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HCCAT5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for HCCAT5 Gene

Disorders for HCCAT5 Gene

MalaCards: The human disease database

(1) MalaCards diseases for HCCAT5 Gene - From: DISEASES

Disorder Aliases PubMed IDs
wilson-turner x-linked mental retardation syndrome
  • wts
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for HCCAT5

genes like me logo Genes that share disorders with HCCAT5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HCCAT5 Gene

Publications for HCCAT5 Gene

  1. Molecular clone and functional study of a novel hepatoma associated gene. (PMID: 23314567) Liu Y … Li Y (International journal of oncology 2013) 2 3 58
  2. Identification of HTA as a novel-specific marker for human hepatocellular carcinoma. (PMID: 20130911) Liu Y … Li G (Journal of cancer research and clinical oncology 2010) 2 3 58
  3. 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 HCCAT5 Gene

Sources for HCCAT5 Gene

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