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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

3

Aliases for HOXC-AS3 Gene

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

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.

No data available for Entrez Gene 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

Regulatory Elements for HOXC-AS3 Gene

Enhancers for HOXC-AS3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12F053960 0.2 ENCODE 12.6 +24.5 24528 0.2 ZNF366 RNF2 SUZ12 CBX2 EZH2 HOXC-AS3 HOXC10 HOXC6 MIR196A2 HOXC5 HOXC13 HOXC13-AS HOXC9 HOXC-AS1 HOXC-AS2
GH12F053961 0.6 ENCODE 12.6 +23.7 23688 0.2 RNF2 SUZ12 CBX2 REST NR2F2 EZH2 HOXC-AS3 HOXC10 HOXC6 MIR196A2 HOXC5 HOXC13 HOXC13-AS HOXC-AS2 HOXC9 HOXC-AS1
GH12F054201 0.2 ENCODE 11.5 -216.0 -215993 0.2 CTCF SUZ12 MAX RAD21 ZNF101 RFX5 ADNP SMC3 ZNF143 RCOR1 HOXC8 HOXC-AS1 HOXC-AS2 HOXC9 HOXC6 MIR196A2 MIR615 HOXC4 HOXC5 HOXC-AS3
GH12F054195 1.2 FANTOM5 Ensembl ENCODE 11.5 -211.2 -211157 3.1 HDGF PKNOX1 KLF17 ZNF121 GLIS2 ZNF366 SMARCC2 KLF7 FOS KDM4B MAP3K12 HOXC8 HOXC-AS1 HOXC-AS2 HOXC9 HOXC6 MIR196A2 MIR615 HOXC4 HOXC5
GH12F054188 0.9 ENCODE 11.3 -203.6 -203587 1.0 PKNOX1 ATF1 CREB3L1 ARID4B SIN3A ETS1 GLIS2 GATA2 ELK1 ZNF143 FLJ12825 HOXC8 HOXC-AS2 HOXC9 HOXC-AS1 HOXC6 MIR615 HOXC4 HOXC5 LOC102724030
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

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

Promoters for HOXC-AS3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000430955 919 5201 HDGF PKNOX1 ARNT SIN3A ZNF2 YY1 ZNF143 ZNF207 FOS DEK

Genomic Location for HOXC-AS3 Gene

Chromosome:
12
Start:
53,981,509 bp from pter
End:
53,985,519 bp from pter
Size:
4,011 bases
Orientation:
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

Animal Model 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 and Gene Ontology (GO) - Cellular Components for HOXC-AS3 Gene

Pathways & Interactions for HOXC-AS3 Gene

SuperPathways for HOXC-AS3 Gene

No Data Available

Interacting Proteins for HOXC-AS3 Gene

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

None

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

Transcripts for HOXC-AS3 Gene

mRNA/cDNA for HOXC-AS3 Gene

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

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
HOXC-AS3
ECgene alternative splicing isoforms for
HOXC-AS3

Expression for HOXC-AS3 Gene

mRNA expression in normal human tissues 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 and mRNA Expression by UniProt/SwissProt for HOXC-AS3 Gene

Orthologs for HOXC-AS3 Gene

Evolution for HOXC-AS3 Gene

ENSEMBL:
Gene Tree for HOXC-AS3 (if available)
TreeFam:
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 Sequence Context AA Info Type
rs11170779 -- 53,987,516(+) AGACC(C/G)TGAGC intron-variant, upstream-variant-2KB
rs112119401 -- 53,984,333(+) GGTCT(C/T)TGGCT intron-variant, upstream-variant-2KB
rs112898605 -- 53,986,293(+) TGCAC(C/G)GGACG intron-variant, upstream-variant-2KB
rs113830814 -- 53,986,253(+) GGGCG(A/G)TGCGC intron-variant, upstream-variant-2KB
rs115105158 -- 53,987,397(+) CTGGA(A/T)GATGA intron-variant, upstream-variant-2KB

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

Relevant External Links for HOXC-AS3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HOXC-AS3

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

Disorders for HOXC-AS3 Gene

Relevant External Links for HOXC-AS3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3 64
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for HOXC-AS3 Gene

Sources for HOXC-AS3 Gene

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