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Aliases for HCG4 Gene

Subcategory (RNA class) for HCG4 Gene

antisense

Quality Score for this RNA gene is

3

Aliases for HCG4 Gene

  • HLA Complex Group 4 (Non-Protein Coding) 2 3 5
  • HLA Complex Group 4 Pseudogene 10 2 3
  • HLA Complex Group 4 2
  • HCGIV-10 Pseudogene 3
  • HCGIV-10 3
  • HCGIV.9 3
  • HCG4P10 3

External Ids for HCG4 Gene

ORGUL Members for HCG4 Gene

Previous HGNC Symbols for HCG4 Gene

  • HCG4P10

Previous GeneCards Identifiers for HCG4 Gene

  • GC06M029529
  • GC06M029867
  • GC06M029869
  • GC06M029870
  • GC06M029871
  • GC06M029873
  • GC06M029876
  • GC06M029881
  • GC06M029761
  • GC06M029774
  • GC06M029778
  • GC06M029792
  • GC06M029794
  • GC06M029806
  • GC06M029809
  • GC06M029812
  • GC06M029818
  • GC06M029825
  • GC06M029851
  • GC06M030113

Summaries for HCG4 Gene

GeneCards Summary for HCG4 Gene

HCG4 (HLA Complex Group 4 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the antisense 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 HCG4 Gene

Genomics for HCG4 Gene

Regulatory Elements for HCG4 Gene

Enhancers for HCG4 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
GH06F029797 0.6 ENCODE 55.8 -4.3 -4255 1.7 ZNF335 JUND YY2 JUN USF2 FOS PRDM10 FOSL2 MAFK SETDB1 HCG4 ZFP57 HLA-H ZNRD1ASP HLA-A HCG4P5 HCG4P3 ZNRD1 HLA-G TRIM31-AS1
GH06F029789 0.2 ENCODE 55.8 +1.5 1505 3.9 CTCF CBX3 PKNOX1 ZFP64 TAL1 BACH1 RAD21 YY1 ZNF316 POLR2A HCG4 HLA-H ZNRD1 HLA-A HLA-T ZNRD1ASP HCG4P3 ZFP57 TRIM31-AS1 TRIM31
GH06F029813 0.6 ENCODE 30.9 -21.0 -20966 0.2 ELF3 CTCF JUN ZNF175 ELF1 ZNF644 JUND ZNF589 ATF3 GABPB1 HCG4 ZNRD1ASP MICG HLA-G
GH06F029907 0.2 ENCODE 25.1 -115.7 -115679 2.7 ZFP64 CEBPG THRB RARA HNF4G FOS NR2F6 FOSL2 MIXL1 GATAD2A HLA-J HLA-G HCG4 HLA-A ZFP57 HCG4P7 HLA-V MICD HLA-H HCG4P3
GH06F029845 0.6 ENCODE 20.3 -52.5 -52466 0.2 INSM2 KLF17 ZNF155 ZNF366 SCRT2 RCOR1 KLF7 FOS ZNF362 SP3 HLA-H PPP1R10 DHX16 HLA-A PAIP1P1 ETF1P1 HCG4 HLA-K HCG4B ABCF1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around HCG4 on UCSC Golden Path with GeneCards custom track

Promoters for HCG4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000129670 772 1800 CTCF CBX3 PKNOX1 TAL1 RAD21 YY1 POLR2A MTA1 CBX5 GABPB1

Genomic Location for HCG4 Gene

Chromosome:
6
Start:
29,791,031 bp from pter
End:
29,793,073 bp from pter
Size:
2,043 bases
Orientation:
Minus strand

Genomic View for HCG4 Gene

Genes around HCG4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HCG4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HCG4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for HCG4 Gene

Post-translational modifications for HCG4 Gene

No Post-translational modifications

No data available for DME Specific Peptides for HCG4 Gene

Domains & Families for HCG4 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 HCG4 Gene

Function for HCG4 Gene

Phenotypes for HCG4 Gene

GenomeRNAi human phenotypes for HCG4:
genes like me logo Genes that share phenotypes with HCG4: view

Animal Model Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for HCG4 Gene

Localization for HCG4 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for HCG4 Gene

Pathways & Interactions for HCG4 Gene

SuperPathways for HCG4 Gene

No Data Available

Interacting Proteins for HCG4 Gene

Gene Ontology (GO) - Biological Process for HCG4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for HCG4 Gene

Transcripts for HCG4 Gene

mRNA/cDNA for HCG4 Gene

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

Unigene Clusters for HCG4 Gene

HLA complex group 4 (non-protein coding):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HCG4 Gene

No ASD Table

Relevant External Links for HCG4 Gene

GeneLoc Exon Structure for
HCG4
ECgene alternative splicing isoforms for
HCG4

Expression for HCG4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for HCG4 Gene

NURSA nuclear receptor signaling pathways regulating expression of HCG4 Gene:

HCG4

SOURCE GeneReport for Unigene cluster for HCG4 Gene:

Hs.660431
genes like me logo Genes that share expression patterns with HCG4: view

Primer 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 , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for HCG4 Gene

Orthologs for HCG4 Gene

Evolution for HCG4 Gene

ENSEMBL:
Gene Tree for HCG4 (if available)
TreeFam:
Gene Tree for HCG4 (if available)

No data available for Orthologs for HCG4 Gene

Paralogs for HCG4 Gene

No data available for Paralogs for HCG4 Gene

Variants for HCG4 Gene

Sequence variations from dbSNP and Humsavar for HCG4 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs10659163 -- 29,793,305(+) GGTCC(-/ATG)CATGA intron-variant, upstream-variant-2KB
rs111238900 -- 29,793,013(+) GGGTA(A/C/T)CACCA intron-variant, nc-transcript-variant
rs111968772 -- 29,792,609(+) CCGGA(A/G/T)TATTG nc-transcript-variant
rs112088210 -- 29,793,014(+) GGTAT(A/C/G)ACCAG intron-variant, nc-transcript-variant
rs112182869 -- 29,793,329(+) GGTCT(C/T)ATCAC intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HCG4 Gene

Variant ID Type Subtype PubMed ID
dgv1086e199 CNV deletion 23128226
dgv992e201 CNV deletion 23290073
esv25966 CNV gain+loss 19812545
esv2731768 CNV deletion 23290073
esv2731772 CNV deletion 23290073
esv3332677 CNV duplication 20981092
esv3420260 CNV duplication 20981092
nsv1074389 CNV deletion 25765185
nsv10809 CNV gain 18304495
nsv1122126 CNV deletion 24896259
nsv1144137 CNV deletion 24896259
nsv428139 CNV gain 18775914
nsv508397 CNV deletion 20534489
nsv965702 CNV duplication 23825009

Relevant External Links for HCG4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HCG4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for HCG4 Gene

Disorders for HCG4 Gene

Relevant External Links for HCG4

Genetic Association Database (GAD)
HCG4
Human Genome Epidemiology (HuGE) Navigator
HCG4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HCG4

No disorders were found for HCG4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HCG4 Gene

Publications for HCG4 Gene

  1. SNP mapping and candidate gene sequencing in the class I region of the HLA complex: searching for multiple sclerosis susceptibility genes in Tasmanians. (PMID: 17971048) Burfoot R.K. … Rubio J.P. (Tissue Antigens 2008) 3 22 46 64
  2. Down-regulation of HLA Class I and NKG2D ligands through a concerted action of MAPK and DNA methyltransferases in colorectal cancer cells. (PMID: 19569244) Sers C. … SchAofer R. (Int. J. Cancer 2009) 3 64
  3. 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
  4. 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) 3 64
  5. A 356-Kb sequence of the subtelomeric part of the MHC class I region. (PMID: 10727083) Hampe A. … Galibert F. (DNA Seq. 1999) 3 64

Products for HCG4 Gene

Sources for HCG4 Gene

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