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Aliases for HOXC-AS3 Gene

Subcategory (RNA class) for HOXC-AS3 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for HOXC-AS3 Gene

  • HOXC Cluster Antisense RNA 3 2 3 5
  • HOXC Cluster Antisense RNA 3 (Non-Protein Coding) 2 3

External Ids for HOXC-AS3 Gene

Previous GeneCards Identifiers for HOXC-AS3 Gene

  • GC12M054375

Summaries for HOXC-AS3 Gene

GeneCards Summary for HOXC-AS3 Gene

HOXC-AS3 (HOXC Cluster Antisense RNA 3) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for HOXC-AS3 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 HOXC-AS3 Gene

Genomics for HOXC-AS3 Gene

GeneHancer (GH) Regulatory Elements for HOXC-AS3 Gene

Promoters and enhancers for HOXC-AS3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12J054051 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 11.2 -68.0 -67998 4.8 NKRF ZNF121 ZNF384 ZNF687 ZSCAN21 YY1 SP7 CREM PRDM1 MLLT1 HOXC4 AAAS ATF7 RARG HNRNPA1 ENSG00000260470 PCBP2 HOTAIR SP1 IGFBP6
GH12J054188 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 11.3 -203.3 -203281 2 ZFX CC2D1A ELF3 SIX5 ZNF148 NKRF POLR2A TRIM24 ELF1 SP1 LOC105369777 SMUG1 FLJ12825 HOXC8 HOXC-AS1 HOXC6 HOXC-AS2 HOXC9 ENSG00000257605 MIR615
GH12J054079 Promoter/Enhancer 1.4 Ensembl ENCODE 10.1 -95.8 -95768 4.6 MLLT1 ZNF121 ZNF384 ZSCAN21 YY1 SP7 PRDM1 MZF1 IKZF1 GLIS2 ENSG00000250654 ENSG00000249388 LOC100240735 SMUG1 FLJ12825 CBX5 MIR615 HOXC4 HOXC5 HOXC6
GH12J054195 Enhancer 1.1 FANTOM5 ENCODE 11.5 -211.2 -211157 3.1 ZNF121 CDC5L TRIM24 GLIS2 PKNOX1 ZBTB8A BACH1 REST POLR2A KLF7 HOXC8 HOXC-AS1 HOXC-AS2 HOXC6 HOXC9 MIR196A2 MIR615 HOXC4 HOXC5 ENSG00000248576
GH12J054130 Enhancer 1 ENCODE dbSUPER 10.9 -149.2 -149244 8.3 ZNF652 CTCF ZNF121 CEBPG SP7 HNF1A PRDM1 RAD21 RXRA ARID2 FLJ12825 TARBP2 ENSG00000248576 SMUG1 MIR615 HOXC4 HOXC5 HOXC6 ENSG00000260470 HOXC8
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HOXC-AS3 on UCSC Golden Path with GeneCards custom track

Genomic Locations for HOXC-AS3 Gene

Genomic Locations for HOXC-AS3 Gene
4,011 bases
Minus strand
4,011 bases
Minus strand

Genomic View for HOXC-AS3 Gene

Genes around HOXC-AS3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HOXC-AS3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HOXC-AS3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOXC-AS3 Gene

Proteins for HOXC-AS3 Gene

Post-translational modifications for HOXC-AS3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for HOXC-AS3 Gene

Domains & Families for HOXC-AS3 Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for HOXC-AS3 Gene

Function for HOXC-AS3 Gene

Phenotypes From GWAS Catalog for HOXC-AS3 Gene

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for HOXC-AS3 Gene

Localization for HOXC-AS3 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 HOXC-AS3 Gene

Pathways & Interactions for HOXC-AS3 Gene

PathCards logo

SuperPathways for HOXC-AS3 Gene

No Data Available

Interacting Proteins for HOXC-AS3 Gene

Gene Ontology (GO) - Biological Process for HOXC-AS3 Gene


No data available for Pathways by source and SIGNOR curated interactions for HOXC-AS3 Gene

Drugs & Compounds for HOXC-AS3 Gene

No Compound Related Data Available

Transcripts for HOXC-AS3 Gene

mRNA/cDNA for HOXC-AS3 Gene

(3) Additional mRNA sequences :
(4) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(3) RNA Central transcripts :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for HOXC-AS3 Gene

No ASD Table

Relevant External Links for HOXC-AS3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HOXC-AS3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HOXC-AS3 Gene

mRNA differential expression in normal tissues according to GTEx for HOXC-AS3 Gene

This gene is overexpressed in Kidney - Cortex (x12.4), Skin - Sun Exposed (Lower leg) (x4.7), Muscle - Skeletal (x4.4), and Artery - Tibial (x4.2).
genes like me logo Genes that share expression patterns with HOXC-AS3: 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 HOXC-AS3 Gene

Orthologs for HOXC-AS3 Gene

Evolution for HOXC-AS3 Gene

Gene Tree for HOXC-AS3 (if available)
Gene Tree for HOXC-AS3 (if available)

No data available for Orthologs for HOXC-AS3 Gene

Paralogs for HOXC-AS3 Gene

No data available for Paralogs for HOXC-AS3 Gene

Variants for HOXC-AS3 Gene

Sequence variations from dbSNP and Humsavar for HOXC-AS3 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000665051 -- 53,984,568(-) A/T intron_variant
rs1000946141 -- 53,985,009(-) C/T non_coding_transcript_variant
rs1001329145 -- 53,987,430(-) G/A upstream_transcript_variant
rs1001899322 -- 53,984,434(-) A/T intron_variant
rs1002005271 -- 53,983,785(-) G/A downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for HOXC-AS3 Gene

Variant ID Type Subtype PubMed ID
esv2759900 CNV gain+loss 17122850
nsv1070111 CNV deletion 25765185
nsv1136151 CNV deletion 24896259
nsv428282 CNV gain 18775914
nsv826379 CNV gain 20364138

Additional Variant Information for HOXC-AS3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for HOXC-AS3 Gene

Disorders for HOXC-AS3 Gene

Additional Disease Information for HOXC-AS3

No disorders were found for HOXC-AS3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HOXC-AS3 Gene

Publications for HOXC-AS3 Gene

  1. A novel long noncoding RNA HOXC-AS3 mediates tumorigenesis of gastric cancer by binding to YBX1. (PMID: 30286788) Zhang E … De W (Genome biology 2018) 3 58
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 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 HOXC-AS3 Gene

Sources for HOXC-AS3 Gene

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