HCG18 Gene (RNA Gene)

HLA Complex Group 18

GC06M030874
GIFtS:
16
See more...

Aliases for HCG18 Gene

Subcategory (RNA class) for HCG18 Gene

lncRNA

Number of RNA Genes sources:

4 / 17

Aliases for HCG18 Gene

  • HLA Complex Group 18 2 3 5
  • HLA Complex Group 18 (Non-Protein Coding) 2 3
  • HCG18 2 5
  • NONHSAG046390.2 91
  • NONHSAG046574.2 91
  • NONHSAG046057.2 91
  • NONHSAG045872.2 91
  • NONHSAG043403.2 91
  • NONHSAG045682.2 91
  • NONHSAG045570.2 91
  • Em:AB014087.1 2
  • HSALNG0049132 164
  • Lnc-TRIM26-2 165
  • FLJ31598 2
  • FLJ25550 2

External Ids for HCG18 Gene

Additional External Ids for HCG18 Gene

Previous GeneCards Identifiers for HCG18 Gene

  • GC00U915705
  • GC06U900759
  • GC06M030259
  • GC06M030053
  • GC06M030287
  • GC06M030519
  • GC06M030657

Summaries for HCG18 Gene

GeneCards Summary for HCG18 Gene

HCG18 (HLA Complex Group 18) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for HCG18 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for HCG18 Gene

Genomics for HCG18 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for HCG18 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
GH06J030321 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 667.6 +2.5 2464 6.6 RNF2 ARHGAP35 HNRNPL CREB1 GATAD2A PRDM10 ZNF629 RFX1 LEF1 IKZF1 HCG18 TRIM39 HCG17 GTF2H4 MDC1 HLA-U HLA-L PPP1R10 ZNRD1ASP RPL23AP1
GH06J030328 Promoter 0.4 EPDnew 600.7 -1.6 -1642 0.1 ZNF512 HCG18 TRIM39 TRIM39-RPP21 piR-56235 RPP21 RF00017-5399
GH06J030289 Promoter 0.3 EPDnew 600.3 +38.0 37959 0.1 HCG18 ENSG00000280128 lnc-TRIM39-1 HLA-L TRIM39 HCG17 TRIM26 RF00017-5399
GH06J030162 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 120.5 +163.6 163597 2.8 ZNF221 HNRNPL GATAD2A PRDM10 REST ZNF629 NFKBIZ ZNF692 RCOR2 RBFOX2 TRIM10 TRIM15 piR-61101-576 MDC1 HCG18 GTF2H4 PPP1R10 ZNRD1ASP TRIM39 HLA-U
GH06J030907 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 86.8 -581.1 -581075 2.2 ZNF221 ARHGAP35 SP1 HNRNPL CREB1 GATAD2A PRDM10 REST ZNF629 SIX5 GTF2H4 ENSG00000288473 lnc-GTF2H4-1 MDC1 DDX39B LY6G5B PPP1R10 TRIM39 LSM2 PAIP1P1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HCG18 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the HCG18 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • Nkx2-5
  • p53
  • PPAR-gamma1
  • PPAR-gamma2

Genomic Locations for HCG18 Gene

Genomic Locations for HCG18 Gene
chr6:30,234,039-30,327,382
(GRCh38/hg38)
Size:
93,344 bases
Orientation:
Minus strand
chr6:30,255,174-30,294,927
(GRCh37/hg19)
Size:
39,754 bases
Orientation:
Minus strand

Genomic View for HCG18 Gene

Genes around HCG18 on UCSC Golden Path with GeneCards custom track
HCG18 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
HCG18 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HCG18 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

Proteins for HCG18 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

No data available for DME Specific Peptides for HCG18 Gene

Domains & Families for HCG18 Gene

Gene Families for HCG18 Gene

HGNC:
genes like me logo Genes that share domains with HCG18: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for HCG18 Gene

Function for HCG18 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Phenotypes From GWAS Catalog for HCG18 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 HCG18 Gene

Localization for HCG18 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HCG18 gene
Compartment Confidence
extracellular 1
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for HCG18 Gene

Pathways & Interactions for HCG18 Gene

PathCards logo

SuperPathways for HCG18 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HCG18 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for HCG18 Gene

Drugs & Compounds for HCG18 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for HCG18 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

Non-coding RNA (ncRNA) Transcripts from RNAcentral for HCG18 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075CE1F_9606 lncRNA 6820 4

HGNC: 31337,

RefSeq: NR_024052,

LNCipedia: lnc-TRIM26-2:12,

NONCODE: NONHSAT108616.2, NONHSAT116943.2,

URS000031FC79_9606 lncRNA 4605 4

Ensembl: ENST00000419487 (view in UCSC) , ENST00000444126 (view in UCSC) , ENST00000451842 (view in UCSC) , ENST00000457778 (view in UCSC) ,

LncBook: HSALNT0103861, HSALNT0103867, HSALNT0103869, HSALNT0103873, HSALNT0103880,

LNCipedia: lnc-TRIM26-2:8,

NONCODE: NONHSAT108623.2, NONHSAT116593.2, NONHSAT117955.2, NONHSAT118311.2,

URS0000619B02_9606 lncRNA 4433 4

Ensembl: ENST00000416033 (view in UCSC) , ENST00000440939 (view in UCSC) , ENST00000448669 (view in UCSC) , ENST00000454129 (view in UCSC) ,

LncBook: HSALNT0103860, HSALNT0103864, HSALNT0103866, HSALNT0103872, HSALNT0103876,

LNCipedia: lnc-TRIM26-2:6,

NONCODE: NONHSAT108621.2, NONHSAT116597.2, NONHSAT117958.2, NONHSAT118307.2,

URS00008C3460_9606 lncRNA 4317 4

Ensembl: ENST00000419994 (view in UCSC) , ENST00000437023 (view in UCSC) , ENST00000443641 (view in UCSC) ,

LncBook: HSALNT0103858, HSALNT0103862, HSALNT0103868, HSALNT0103871, HSALNT0103875,

LNCipedia: lnc-TRIM26-2:2,

NONCODE: NONHSAT108624.2, NONHSAT116594.2, NONHSAT117957.2, NONHSAT118308.2,

URS0000441EBF_9606 lncRNA 4262 4

Ensembl: ENST00000447211 (view in UCSC) , ENST00000456773 (view in UCSC) ,

LncBook: HSALNT0103859, HSALNT0103863, HSALNT0103865, HSALNT0103870, HSALNT0103879,

LNCipedia: lnc-TRIM26-2:7,

NONCODE: NONHSAT108622.2, NONHSAT116596.2, NONHSAT118309.2,

HCG18 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for HCG18 Gene

7 NCBI additional mRNA sequence :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for HCG18 Gene

No ASD Table

Relevant External Links for HCG18 Gene

GeneLoc Exon Structure for
HCG18

Expression for HCG18 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for HCG18 Gene

mRNA expression in normal human tissues for HCG18 Gene
mRNA expression by GTEx for HCG18 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for HCG18

SOURCE GeneReport for Unigene cluster for HCG18 Gene:

Hs.485041
genes like me logo Genes that share expression patterns with HCG18: view

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 HCG18 Gene

Orthologs for HCG18 Gene

Evolution for HCG18 Gene

ENSEMBL:
Gene Tree for HCG18 (if available)
TreeFam:
Gene Tree for HCG18 (if available)

No data available for Orthologs for HCG18 Gene

Paralogs for HCG18 Gene

No data available for Paralogs for HCG18 Gene

Variants for HCG18 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for HCG18 Gene

Structural Variations from Database of Genomic Variants (DGV) for HCG18 Gene

Variant ID Type Subtype PubMed ID
esv3411275 CNV duplication 20981092
nsv1074389 CNV deletion 25765185
nsv1122126 CNV deletion 24896259
nsv1144137 CNV deletion 24896259
nsv601264 CNV loss 21841781

Additional Variant Information for HCG18 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HCG18

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for HCG18 Gene

Disorders for HCG18 Gene

Additional Disease Information for HCG18

Genetic Association Database
(GAD)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform

No disorders were found for HCG18 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HCG18 Gene

Publications for HCG18 Gene

  1. Mammalian APE1 controls miRNA processing and its interactome is linked to cancer RNA metabolism. (PMID: 28986522) Antoniali G … Tell G (Nature communications 2017) 3
  2. Genome-wide association study identifies variants in the MHC class I, IL10, and IL23R-IL12RB2 regions associated with Behçet's disease. (PMID: 20622878) Remmers EF … Gül A (Nature genetics 2010) 41
  3. Genome-wide association analysis of susceptibility and clinical phenotype in multiple sclerosis. (PMID: 19010793) Baranzini SE … Oksenberg JR (Human molecular genetics 2009) 41
  4. Association of systemic lupus erythematosus with C8orf13-BLK and ITGAM-ITGAX. (PMID: 18204098) Hom G … Behrens TW (The New England journal of medicine 2008) 41
  5. 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

ExternalLinks

View latest publications for HCG18 gene in Mastermind

Products for HCG18 Gene

Sources for HCG18 Gene