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Aliases for HCG4 Gene

Subcategory (RNA class) for HCG4 Gene

antisense

Quality Score for this RNA gene is

13

Aliases for HCG4 Gene

  • HLA Complex Group 4 2 2 3
  • HLA Complex Group 4 (Non-Protein Coding) 2 3 5
  • HLA Complex Group 4 Pseudogene 10 2 3
  • 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
  • GC06M030062
  • GC06M030125
  • GC06M030181
  • GC06M030233

Summaries for HCG4 Gene

GeneCards Summary for HCG4 Gene

HCG4 (HLA Complex Group 4) is an RNA Gene, and is affiliated with the antisense RNA class.

Additional gene information for HCG4 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 HCG4 Gene

Genomics for HCG4 Gene

GeneHancer (GH) Regulatory Elements for HCG4 Gene

Promoters and enhancers for HCG4 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
GH06J029789 Promoter/Enhancer 1.4 Ensembl ENCODE dbSUPER 705.8 +1.5 1505 3.9 CTCF PKNOX1 MAX RAD21 YY1 FOS EZH2 NR2F1 USF2 CEBPB HCG4 HLA-V HLA-H ZNRD1 HLA-A HLA-T ZNRD1ASP HCG4P3 ZFP57 TRIM31-AS1
GH06J029797 Enhancer 0.7 ENCODE dbSUPER 55.8 -4.3 -4255 1.7 JUND MAFF USF2 SETDB1 HCG4 ZFP57 HLA-H ZNRD1ASP HLA-A HCG4P5 HCG4P3 ZNRD1 HLA-G TRIM31-AS1
GH06J029963 Enhancer 1.8 FANTOM5 Ensembl ENCODE dbSUPER 18.6 -173.2 -173176 4.8 MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 HLA-A HLA-K HCG4P3 ZNRD1 HLA-W TRIM39 HLA-H PPP1R10 MDC1 DHX16
GH06J029976 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 17.5 -183.9 -183882 1.7 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 POLR2B ZNF213 MICD HCG9 HLA-J HCG4P3 HLA-K ZFP57 HLA-H ZNRD1 HLA-A HCG4P7
GH06J030100 Enhancer 1.6 FANTOM5 Ensembl ENCODE 17.6 -309.0 -309007 3.9 FOXA2 MLX ARNT ARID4B SIN3A DMAP1 SLC30A9 ZNF143 SP3 SP5 MICD HLA-K RPL23AP1 TRIM31-AS1 HCG4 NRM HLA-W ZNRD1ASP ZNRD1 DHX16
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HCG4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HCG4 gene promoter:
  • AP-1
  • c-Jun
  • ATF-2
  • deltaCREB
  • CREB
  • Max1
  • AP-2gamma
  • NF-E2 p45
  • NF-E2
  • XBP-1

Genomic Locations for HCG4 Gene

Genomic Locations for HCG4 Gene
chr6:29,791,031-29,793,073
(GRCh38/hg38)
Size:
2,043 bases
Orientation:
Minus strand
chr6:29,758,808-29,760,850
(GRCh37/hg19)
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

Function for HCG4 Gene

Phenotypes From GWAS Catalog for HCG4 Gene

Phenotypes for HCG4 Gene

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

Animal Model Products

Clone 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 , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for HCG4 Gene

Pathways & Interactions 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

Drugs & Compounds for HCG4 Gene

No Compound Related Data Available

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 :
(1) RNA Central transcripts :

Unigene Clusters for HCG4 Gene

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

Clone Products

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 CGAP 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 , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 Variation AA Info Type
rs1000248803 -- 29,795,026(-) C/T upstream_transcript_variant
rs1000893717 -- 29,792,844(-) A/G non_coding_transcript_variant
rs1002403418 -- 29,791,081(-) C/A/T non_coding_transcript_variant
rs1003046185 -- 29,793,412(-) G/A upstream_transcript_variant
rs1003310663 -- 29,790,723(-) T/C downstream_transcript_variant

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

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

Additional Variant Information for HCG4 Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for HCG4 Gene

Additional Disease Information for HCG4

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

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 RK … Rubio JP (Tissue antigens 2008) 3 22 44 58
  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 … Schäfer R (International journal of cancer 2009) 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
  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 (Proceedings of the National Academy of Sciences of the United States of America 1999) 3 58
  5. A 356-Kb sequence of the subtelomeric part of the MHC Class I region. (PMID: 10727083) Hampe A … Galibert F (DNA sequence : the journal of DNA sequencing and mapping 1999) 3 58

Products for HCG4 Gene

Sources for HCG4 Gene

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