RAG1 (recombination activating gene 1)

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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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

RAG1 (recombination activating gene 1)

Identity

Other names	RAG-1
	RNF74
HGNC (Hugo)	RAG1
LocusID (NCBI)	5896
Location	11p12
Location_base_pair	Starts at 36589563 and ends at 36601310 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

Other Leukemias implicated (Data extracted from papers in the Atlas)

Leukemias

11q23ChildAMLID1615

External links

	Nomenclature
HGNC (Hugo)	RAG1 9831
	Cards
Entrez_Gene (NCBI)	RAG1 5896 recombination activating gene 1
GeneCards (Weizmann)	RAG1
Ensembl hg19 (Hinxton)	ENSG00000166349 [Gene_View] chr11:36589563-36601310 [Contig_View] RAG1 [Vega]
Ensembl hg38 (Hinxton)	ENSG00000166349 [Gene_View] chr11:36589563-36601310 [Contig_View] RAG1 [Vega]
ICGC DataPortal	ENSG00000166349
cBioPortal	RAG1
AceView (NCBI)	RAG1
Genatlas (Paris)	RAG1
WikiGenes	5896
SOURCE (Princeton)	RAG1
	Genomic and cartography
GoldenPath hg19 (UCSC)	RAG1 - chr11:36589563-36601310 + 11p12 [Description] (hg19-Feb_2009)
GoldenPath hg38 (UCSC)	RAG1 - 11p12 [Description] (hg38-Dec_2013)
Ensembl	RAG1 - 11p12 [CytoView hg19] RAG1 - 11p12 [CytoView hg38]
Mapping of homologs : NCBI	RAG1 [Mapview hg19] RAG1 [Mapview hg38]
OMIM	179615 233650 601457 603554 609889
	Gene and transcription
Genbank (Entrez)	BC037344 M29474
RefSeq transcript (Entrez)	NM_000448
RefSeq genomic (Entrez)	AC_000143 NC_000011 NC_018922 NG_007528 NT_009237 NW_001838022 NW_004929378
Consensus coding sequences : CCDS (NCBI)	RAG1
Cluster EST : Unigene	Hs.677010 [ NCBI ]
CGAP (NCI)	Hs.677010
Alternative Splicing : Fast-db (Paris)	GSHG0004765
Alternative Splicing Gallery	ENSG00000166349
Gene Expression	RAG1 [ NCBI-GEO ] RAG1 [ SEEK ] RAG1 [ MEM ]
SOURCE (Princeton)	Expression in : [Normal Tissue Atlas] [carcinoma Classsification] [NCI60]
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	P15918 (Uniprot)
NextProt	P15918 [Medical]
With graphics : InterPro	P15918
Splice isoforms : SwissVar	P15918 (Swissvar)
Catalytic activity : Enzyme	3.1.-.- [ Enzyme-Expasy ] 3.1.-.-3.1.-.- [ IntEnz-EBI ] 3.1.-.- [ BRENDA ] 3.1.-.- [ KEGG ]
Domaine pattern : Prosite (Expaxy)	NBD (PS51487) ZF_RING_1 (PS00518) ZF_RING_2 (PS50089)
Domains : Interpro (EBI)	RAG1 RAG_nonamer-bd_dom Znf_C2H2-like Znf_C2H2/integrase_DNA-bd Znf_C3HC4_RING-type Znf_RING Znf_RING/FYVE/PHD Znf_RING_CS Znf_VDJ_recomb-activ_1
Related proteins : CluSTr	P15918
Domain families : Pfam (Sanger)	RAG1 (PF12940) zf-C3HC4 (PF00097) zf-RAG1 (PF10426)
Domain families : Pfam (NCBI)	pfam12940 pfam00097 pfam10426
Domain families : Smart (EMBL)	RING (SM00184) ZnF_C2H2 (SM00355)
DMDM Disease mutations	5896
Blocks (Seattle)	P15918
Human Protein Atlas	ENSG00000166349
Peptide Atlas	P15918
HPRD	01556
IPI	IPI00013914 IPI00975927
	Protein Interaction databases
DIP (DOE-UCLA)	P15918
IntAct (EBI)	P15918
FunCoup	ENSG00000166349
BioGRID	RAG1
IntegromeDB	RAG1
STRING (EMBL)	RAG1
	Ontologies - Pathways
QuickGO	P15918
Ontology : AmiGO	adaptive immune response pre-B cell allelic exclusion DNA binding endonuclease activity ubiquitin-protein transferase activity protein binding nucleus DNA recombination immune response zinc ion binding histone monoubiquitination acid-amino acid ligase activity B cell differentiation T cell differentiation in thymus V(D)J recombination histone binding protein homodimerization activity T cell homeostasis negative regulation of cysteine-type endopeptidase activity involved in apoptotic process sequence-specific DNA binding regulation of T cell differentiation metal ion binding thymus development protein autoubiquitination negative regulation of thymocyte apoptotic process nucleic acid phosphodiester bond hydrolysis nucleic acid phosphodiester bond hydrolysis
Ontology : EGO-EBI	adaptive immune response pre-B cell allelic exclusion DNA binding endonuclease activity ubiquitin-protein transferase activity protein binding nucleus DNA recombination immune response zinc ion binding histone monoubiquitination acid-amino acid ligase activity B cell differentiation T cell differentiation in thymus V(D)J recombination histone binding protein homodimerization activity T cell homeostasis negative regulation of cysteine-type endopeptidase activity involved in apoptotic process sequence-specific DNA binding regulation of T cell differentiation metal ion binding thymus development protein autoubiquitination negative regulation of thymocyte apoptotic process nucleic acid phosphodiester bond hydrolysis nucleic acid phosphodiester bond hydrolysis
Pathways : KEGG	FoxO signaling pathway Primary immunodeficiency
Protein Interaction Database	RAG1
DoCM (Curated mutations)	RAG1
Wikipedia pathways	RAG1
	Gene fusion - rearrangements
	Polymorphisms : SNP, variants
NCBI Variation Viewer	RAG1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	RAG1
dbVar	RAG1
ClinVar	RAG1
1000_Genomes	RAG1
Exome Variant Server	RAG1
SNP (GeneSNP Utah)	RAG1
SNP : HGBase	RAG1
Genetic variants : HAPMAP	RAG1
Genomic Variants (DGV)	RAG1 [DGVbeta]
	Mutations
ICGC Data Portal	ENSG00000166349
Somatic Mutations in Cancer : COSMIC	RAG1
CONAN: Copy Number Analysis	RAG1
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)	Mendelian genes
LOVD (Leiden Open Variation Database)	PUBLIC CCHMC Molecular Genetics Laboratory Mutation Database
Impact of mutations	[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor]
	Diseases
DECIPHER (Syndromes)	11:36589563-36601310
Mutations and Diseases : HGMD	RAG1
OMIM	179615 233650 601457 603554 609889
Medgen	RAG1
NextProt	P15918 [Medical]
GENETests	RAG1
Disease Genetic Association	RAG1
Huge Navigator	RAG1 [HugePedia] RAG1 [HugeCancerGEM]
snp3D : Map Gene to Disease	5896
DGIdb (Drug Gene Interaction db)	RAG1
	General knowledge
Homologs : HomoloGene	RAG1
Homology/Alignments : Family Browser (UCSC)	RAG1
Phylogenetic Trees/Animal Genes : TreeFam	RAG1
Chemical/Protein Interactions : CTD	5896
Chemical/Pharm GKB Gene	PA34185
Clinical trial	RAG1
Cancer Resource (Charite)	ENSG00000166349
	Other databases
	Probes
	Litterature
PubMed	100 Pubmed reference(s) in Entrez
CoreMine	RAG1
GoPubMed	RAG1
iHOP	RAG1

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 18:14:51 CET 2015

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