COL4A3 (collagen, type IV, alpha 3 (Goodpasture antigen))

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home Genes Leukemias Solid Tumours Cancer-Prone Deep Insight Case Reports Journals Portal Teaching

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret
Donations are also welcome

COL4A3 (collagen, type IV, alpha 3 (Goodpasture antigen))

Identity

Other names	-
HGNC (Hugo)	COL4A3
LocusID (NCBI)	1285
Location	2q36.3
Location_base_pair	Starts at 228029281 and ends at 228179508 bp from pter ( according to hg19-Feb_2009)
Note	Non-annotated gene. Preliminary data : if you are an author who wish to write a full paper/card on this gene, go to How to contribute

DNA/RNA

External links

	Nomenclature
HGNC (Hugo)	COL4A3 2204
	Cards
Entrez_Gene (NCBI)	COL4A3 1285 collagen, type IV, alpha 3 (Goodpasture antigen)
GeneCards (Weizmann)	COL4A3
Ensembl hg19 (Hinxton)	ENSG00000169031 [Gene_View] chr2:228029281-228179508 [Contig_View] COL4A3 [Vega]
Ensembl hg38 (Hinxton)	ENSG00000169031 [Gene_View] chr2:228029281-228179508 [Contig_View] COL4A3 [Vega]
ICGC DataPortal	ENSG00000169031
cBioPortal	COL4A3
AceView (NCBI)	COL4A3
Genatlas (Paris)	COL4A3
WikiGenes	1285
SOURCE (Princeton)	COL4A3
	Genomic and cartography
GoldenPath hg19 (UCSC)	COL4A3 - chr2:228029281-228179508 + 2q36.3 [Description] (hg19-Feb_2009)
GoldenPath hg38 (UCSC)	COL4A3 - 2q36.3 [Description] (hg38-Dec_2013)
Ensembl	COL4A3 - 2q36.3 [CytoView hg19] COL4A3 - 2q36.3 [CytoView hg38]
Mapping of homologs : NCBI	COL4A3 [Mapview hg19] COL4A3 [Mapview hg38]
OMIM	104200 120070 141200 203780
	Gene and transcription
Genbank (Entrez)	AF258351 AU099354 BC156138 BM670570 BM712932
RefSeq transcript (Entrez)	NM_000091 NM_031362 NM_031363 NM_031364 NM_031365 NM_031366
RefSeq genomic (Entrez)	AC_000134 NC_000002 NC_018913 NG_011591 NT_005403 NW_001838866 NW_004929305
Consensus coding sequences : CCDS (NCBI)	COL4A3
Cluster EST : Unigene	Hs.570065 [ NCBI ]
CGAP (NCI)	Hs.570065
Alternative Splicing : Fast-db (Paris)	GSHG0017248
Alternative Splicing Gallery	ENSG00000169031
Gene Expression	COL4A3 [ NCBI-GEO ] COL4A3 [ SEEK ] COL4A3 [ MEM ]
SOURCE (Princeton)	Expression in : [Normal Tissue Atlas] [carcinoma Classsification] [NCI60]
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	Q01955 (Uniprot)
NextProt	Q01955 [Medical]
With graphics : InterPro	Q01955
Splice isoforms : SwissVar	Q01955 (Swissvar)
Domaine pattern : Prosite (Expaxy)	NC1_IV (PS51403)
Domains : Interpro (EBI)	C-type_lectin_fold Collagen Collagen_VI_NC
Related proteins : CluSTr	Q01955
Domain families : Pfam (Sanger)	C4 (PF01413) Collagen (PF01391)
Domain families : Pfam (NCBI)	pfam01413 pfam01391
Domain families : Smart (EMBL)	C4 (SM00111)
DMDM Disease mutations	1285
Blocks (Seattle)	Q01955
Human Protein Atlas	ENSG00000169031
Peptide Atlas	Q01955
HPRD	00354
IPI	IPI00010360 IPI00332623 IPI00413923 IPI00829991 IPI00396322 IPI00977256 IPI01018645 IPI01018950
	Protein Interaction databases
DIP (DOE-UCLA)	Q01955
IntAct (EBI)	Q01955
FunCoup	ENSG00000169031
BioGRID	COL4A3
IntegromeDB	COL4A3
STRING (EMBL)	COL4A3
	Ontologies - Pathways
QuickGO	Q01955
Ontology : AmiGO	integrin binding integrin binding structural molecule activity extracellular matrix structural constituent protein binding extracellular region collagen type IV trimer basement membrane endoplasmic reticulum lumen activation of cysteine-type endopeptidase activity involved in apoptotic process cell adhesion cell surface receptor signaling pathway axon guidance sensory perception of sound blood circulation metalloendopeptidase inhibitor activity cell proliferation negative regulation of cell proliferation response to glucose negative regulation of endopeptidase activity negative regulation of angiogenesis extracellular matrix disassembly extracellular matrix organization collagen catabolic process glomerular basement membrane development endothelial cell apoptotic process
Ontology : EGO-EBI	integrin binding integrin binding structural molecule activity extracellular matrix structural constituent protein binding extracellular region collagen type IV trimer basement membrane endoplasmic reticulum lumen activation of cysteine-type endopeptidase activity involved in apoptotic process cell adhesion cell surface receptor signaling pathway axon guidance sensory perception of sound blood circulation metalloendopeptidase inhibitor activity cell proliferation negative regulation of cell proliferation response to glucose negative regulation of endopeptidase activity negative regulation of angiogenesis extracellular matrix disassembly extracellular matrix organization collagen catabolic process glomerular basement membrane development endothelial cell apoptotic process
Pathways : BIOCARTA	Regulators of Bone Mineralization [Genes] Platelet Amyloid Precursor Protein Pathway [Genes] Intrinsic Prothrombin Activation Pathway [Genes] Angiotensin-converting enzyme 2 regulates heart function [Genes] Vitamin C in the Brain [Genes] Acute Myocardial Infarction [Genes]
Pathways : KEGG	PI3K-Akt signaling pathway Focal adhesion ECM-receptor interaction Protein digestion and absorption Amoebiasis Pathways in cancer Small cell lung cancer
Protein Interaction Database	COL4A3
DoCM (Curated mutations)	COL4A3
Wikipedia pathways	COL4A3
	Gene fusion - rearrangements
	Polymorphisms : SNP, variants
NCBI Variation Viewer	COL4A3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	COL4A3
dbVar	COL4A3
ClinVar	COL4A3
1000_Genomes	COL4A3
Exome Variant Server	COL4A3
SNP (GeneSNP Utah)	COL4A3
SNP : HGBase	COL4A3
Genetic variants : HAPMAP	COL4A3
Genomic Variants (DGV)	COL4A3 [DGVbeta]
	Mutations
ICGC Data Portal	ENSG00000169031
Somatic Mutations in Cancer : COSMIC	COL4A3
CONAN: Copy Number Analysis	COL4A3
LOVD (Leiden Open Variation Database)	Whole genome datasets
LOVD (Leiden Open Variation Database)	LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)	LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)	MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
LOVD (Leiden Open Variation Database)	Collagen, type IV, alpha
Impact of mutations	[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor]
	Diseases
DECIPHER (Syndromes)	2:228029281-228179508
Mutations and Diseases : HGMD	COL4A3
OMIM	104200 120070 141200 203780
Medgen	COL4A3
NextProt	Q01955 [Medical]
GENETests	COL4A3
Disease Genetic Association	COL4A3
Huge Navigator	COL4A3 [HugePedia] COL4A3 [HugeCancerGEM]
snp3D : Map Gene to Disease	1285
DGIdb (Drug Gene Interaction db)	COL4A3
	General knowledge
Homologs : HomoloGene	COL4A3
Homology/Alignments : Family Browser (UCSC)	COL4A3
Phylogenetic Trees/Animal Genes : TreeFam	COL4A3
Chemical/Protein Interactions : CTD	1285
Chemical/Pharm GKB Gene	PA26719
Clinical trial	COL4A3
Cancer Resource (Charite)	ENSG00000169031
	Other databases
	Probes
	Litterature
PubMed	112 Pubmed reference(s) in Entrez
CoreMine	COL4A3
GoPubMed	COL4A3
iHOP	COL4A3

Genes in title	automatic search in PubMed
REVIEW articles	automatic search in PubMed
Last year publications	automatic search in PubMed

Search in all EBI NCBI

Contributor(s)

Written	09-2002	Dessen P, Le Minor S

Updated	12-2014	Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology

indexed on : Sat Feb 14 15:15:51 CET 2015

Home Genes Leukemias Solid Tumours Cancer-Prone Deep Insight Case Reports Journals Portal Teaching

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.