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Aliases for HCG9 Gene

Subcategory (RNA class) for HCG9 Gene


Quality Score for this RNA gene is


Aliases for HCG9 Gene

  • HLA Complex Group 9 (Non-Protein Coding) 2 3
  • HLA Complex Group 9 2
  • HCGIX4 3
  • HCGIX 3

External Ids for HCG9 Gene

ORGUL Members for HCG9 Gene

Previous GeneCards Identifiers for HCG9 Gene

  • GC06P029713
  • GC06P030048
  • GC06P030050
  • GC06P029943
  • GC06P030094
  • GC06P030182

Summaries for HCG9 Gene

Entrez Gene Summary for HCG9 Gene

  • This gene lies within the MHC class I region on chromosome 6p21.3. This gene is believed to be non-coding, but its function has not been determined. [provided by RefSeq, Jul 2009]

GeneCards Summary for HCG9 Gene

HCG9 (HLA Complex Group 9 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the lncRNA class.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HCG9 Gene

Genomics for HCG9 Gene

Regulatory Elements for HCG9 Gene

Genomic Location for HCG9 Gene

29,975,112 bp from pter
29,978,410 bp from pter
3,299 bases
Plus strand

Genomic View for HCG9 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HCG9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for HCG9 Gene

Post-translational modifications for HCG9 Gene

No Post-translational modifications

No data available for DME Specific Peptides for HCG9 Gene

Domains for HCG9 Gene

Gene Families for HCG9 Gene

  • LNCRNA :Long non-coding RNAs

Suggested Antigen Peptide Sequences for HCG9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with HCG9: view

No data available for Protein Domains and UniProtKB/Swiss-Prot for HCG9 Gene

Function for HCG9 Gene

Phenotypes for HCG9 Gene

GenomeRNAi human phenotypes for HCG9:
genes like me logo Genes that share phenotypes with HCG9: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for HCG9 Gene

Localization for HCG9 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for HCG9 Gene

Pathways for HCG9 Gene

SuperPathways for HCG9 Gene

No Data Available

Interacting Proteins for HCG9 Gene

Gene Ontology (GO) - Biological Process for HCG9 Gene


No data available for Pathways by source for HCG9 Gene

Transcripts for HCG9 Gene

mRNA/cDNA for HCG9 Gene

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

Unigene Clusters for HCG9 Gene

HLA complex group 9 (non-protein coding):
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HCG9

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HCG9 Gene

No ASD Table

Relevant External Links for HCG9 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HCG9 Gene

mRNA expression in normal human tissues for HCG9 Gene

SOURCE GeneReport for Unigene cluster for HCG9 Gene Hs.656251

genes like me logo Genes that share expressions with HCG9: view

In Situ Assay Products

No data available for 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 , mRNA Expression by UniProt/SwissProt and Expression partners for HCG9 Gene

Orthologs for HCG9 Gene

Evolution for HCG9 Gene

Gene Tree for HCG9 (if available)
Gene Tree for HCG9 (if available)

No data available for Orthologs for HCG9 Gene

Paralogs for HCG9 Gene

Selected SIMAP similar genes for HCG9 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with HCG9: view

No data available for Paralogs for HCG9 Gene

Variants for HCG9 Gene

Sequence variations from dbSNP and Humsavar for HCG9 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs373472 -- 29,975,298(-) TGGAG(C/T)TGGGG nc-transcript-variant
rs378971 -- 29,975,206(-) TGGAG(C/T)CTGCC nc-transcript-variant
rs393282 -- 29,974,720(-) GGGCA(A/G)CGCAG upstream-variant-2KB
rs400488 -- 29,975,258(-) GCTTC(C/T)TATTG nc-transcript-variant
rs408206 -- 29,974,037(-) TGGTA(C/T)GCGGT upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HCG9 Gene

Variant ID Type Subtype PubMed ID
dgv1039e201 CNV Deletion 23290073
esv2731775 CNV Deletion 23290073
esv2670487 CNV Deletion 23128226
dgv1910e1 CNV Complex 17122850
nsv508398 CNV Loss 20534489
esv32544 CNV Gain+Loss 17666407
dgv1912e1 CNV Complex 17122850
nsv10810 CNV Gain+Loss 18304495
dgv1040e201 CNV Deletion 23290073
dgv1088e199 CNV Deletion 23128226
esv2731777 CNV Deletion 23290073
esv2641340 CNV Deletion 19546169
esv2731778 CNV Deletion 23290073
dgv1916e1 CNV Complex 17122850
essv6051 CNV CNV 17122850
esv267694 CNV Insertion 20981092
esv274486 CNV Insertion 20981092
nsv511863 CNV Loss 21212237

Relevant External Links for HCG9 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HCG9 Gene

Disorders for HCG9 Gene

Relevant External Links for HCG9

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator

No disorders were found for HCG9 Gene.

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , University of Copenhagen DISEASES , Novoseek inferred disease relationships and Genatlas for HCG9 Gene

Publications for HCG9 Gene

  1. Molecular dynamics of MHC genesis unraveled by sequence analysis of the 1,796,938-bp HLA class I region. (PMID: 10557312) Shiina T. … Inoko H. (Proc. Natl. Acad. Sci. U.S.A. 1999) 2 3
  2. A 356-Kb sequence of the subtelomeric part of the MHC class I region. (PMID: 10727083) Hampe A. … Galibert F. (DNA Seq. 1999) 2 3
  3. High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PMID: 19851445) Barcellos L.F. … Criswell L.A. (PLoS Genet. 2009) 3 48
  4. Variant of TYR and autoimmunity susceptibility loci in generalized vitiligo. (PMID: 20410501) Jin Y. … Spritz R.A. (N. Engl. J. Med. 2010) 3 48
  5. A major histocompatibility Class I locus contributes to multiple sclerosis susceptibility independently from HLA-DRB1*15:01. (PMID: 20593013) Cree B.A. … . (PLoS ONE 2010) 3 48

Products for HCG9 Gene

Sources for HCG9 Gene

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