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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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 jlhuret@AtlasGeneticsOncology.org
Donations are also welcome
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Don't let the Atlas imminent demise
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SEPT5 (septin 5)

Identity

Other nameshCDCRel-1 (human cell division cycle regulation 1)
PNUTL1 (peanut (drosophila)- like 1)
CDCREL
AF22 (ALL1 fused gene from chromosome 22)
HGNC (Hugo) SEPT5
LocusID (NCBI) 5413
Location 22q11.21
Location_base_pair Starts at 19705958 and ends at 19710845 bp from pter ( according to hg19-Feb_2009)  [Mapping]

DNA/RNA

Description the gene spans 13 kb; 13 exons; one large intron (3.7kb) between exons 2 and 3
Transcription two major splicings in 5' (exons 1 and 2 versus exon 3; 2032 bp mRNA; coding sequence: 1109 bp; the gene is just 5'of GPIb beta (platelet membrane glycoprotein Ib beta precursor), and GPIb beta is co-expressed with hCDCRel-1; this is due to a non-consensus polyadenylation signal in 3' of hCDCRel-1

Protein

Description 369 amino acids; GTPase activity
Expression high level expression in brain, heart, platelets; low level expression in some other tissues
Localisation cytoplasm
Function see below; may have a role in the synaptic function of neurones in the brain
Homology belong to the septin family: filament forming proteins implicated in the cytoskeleton organization; nucleotide binding proteins; hCDCRel-1 is closely related to AF17q25/MSF, also found involved in fusion protein with MLL in leukemia

Implicated in

Entity t(11;22)(q23;q11) acute non lymphocytic leukemia (ANLL) --> MLL - hCDCRel-1
Disease M4, M2, and M1 ANLL
Hybrid/Mutated Gene 5' MLL - 3' hCDCRel, with fusion of MLL exon 7 to hCDCRel exon 3
Abnormal Protein NH2 - AT hook and DNA methyltransferase from MLL fused to hCDCREL-1 - COOH
  

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

Leukemias 11q23ChildAMLID1615 11q23ID1030 11q23secondLeukID1131 t1119ELLID1029

External links

Nomenclature
HGNC (Hugo)sept-05   9164
Cards
AtlashCDCRel-1ID220
Entrez_Gene (NCBI)SEPT5  5413  septin 5
GeneCards (Weizmann)SEPT5
Ensembl hg19 (Hinxton)ENSG00000184702 [Gene_View]  chr22:19705958-19710845 [Contig_View]  SEPT5 [Vega]
Ensembl hg38 (Hinxton)ENSG00000184702 [Gene_View]  chr22:19705958-19710845 [Contig_View]  SEPT5 [Vega]
ICGC DataPortalENSG00000184702
cBioPortalSEPT5
AceView (NCBI)SEPT5
Genatlas (Paris)SEPT5
WikiGenes5413
SOURCE (Princeton)SEPT5
Genomic and cartography
GoldenPath hg19 (UCSC)SEPT5  -     chr22:19705958-19710845 +  22q11.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SEPT5  -     22q11.2   [Description]    (hg38-Dec_2013)
EnsemblSEPT5 - 22q11.2 [CytoView hg19]  SEPT5 - 22q11.2 [CytoView hg38]
Mapping of homologs : NCBISEPT5 [Mapview hg19]  SEPT5 [Mapview hg38]
OMIM602724   
Gene and transcription
Genbank (Entrez)AK056273 AK295940 BC025261 BI601927 BQ448147
RefSeq transcript (Entrez)NM_001009939 NM_002688
RefSeq genomic (Entrez)NC_000022 NC_018933 NT_011520 NW_004929429
Consensus coding sequences : CCDS (NCBI)SEPT5
Cluster EST : UnigeneHs.728762 [ NCBI ]
CGAP (NCI)Hs.728762
Alternative Splicing : Fast-db (Paris)GSHG0019832
Alternative Splicing GalleryENSG00000184702
Gene ExpressionSEPT5 [ NCBI-GEO ]     SEPT5 [ SEEK ]   SEPT5 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ99719 (Uniprot)
NextProtQ99719  [Medical]
With graphics : InterProQ99719
Splice isoforms : SwissVarQ99719 (Swissvar)
Domaine pattern : Prosite (Expaxy)G_SEPTIN (PS51719)   
Domains : Interpro (EBI)G_SEPTIN_dom    P-loop_NTPase    Septin   
Related proteins : CluSTrQ99719
Domain families : Pfam (Sanger)Septin (PF00735)   
Domain families : Pfam (NCBI)pfam00735   
DMDM Disease mutations5413
Blocks (Seattle)Q99719
Human Protein AtlasENSG00000184702
Peptide AtlasQ99719
HPRD04100
IPIIPI00017731   IPI00383573   IPI00043524   IPI00792072   IPI00789164   IPI00879616   IPI00879438   IPI00880201   IPI00880039   IPI00797457   IPI00877708   
Protein Interaction databases
DIP (DOE-UCLA)Q99719
IntAct (EBI)Q99719
FunCoupENSG00000184702
BioGRIDSEPT5
IntegromeDBSEPT5
STRING (EMBL)SEPT5
Ontologies - Pathways
QuickGOQ99719
Ontology : AmiGOcytokinesis  GTPase activity  structural molecule activity  protein binding  GTP binding  cytoskeleton  plasma membrane  cell cortex  synaptic vesicle  metabolic process  synaptic vesicle targeting  regulation of exocytosis  terminal bouton  regulation of synaptic vesicle exocytosis  
Ontology : EGO-EBIcytokinesis  GTPase activity  structural molecule activity  protein binding  GTP binding  cytoskeleton  plasma membrane  cell cortex  synaptic vesicle  metabolic process  synaptic vesicle targeting  regulation of exocytosis  terminal bouton  regulation of synaptic vesicle exocytosis  
Pathways : BIOCARTARole of Parkin in the Ubiquitin-Proteasomal Pathway [Genes]   
Pathways : KEGGParkinson's disease   
Protein Interaction DatabaseSEPT5
DoCM (Curated mutations)SEPT5
Wikipedia pathwaysSEPT5
Gene fusion - rearrangements
Rearrangement : TICdbKMT2A [11q23.3]  -  SEPT5 [7p15.2]
Polymorphisms : SNP, variants
NCBI Variation ViewerSEPT5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SEPT5
dbVarSEPT5
ClinVarSEPT5
1000_GenomesSEPT5 
Exome Variant ServerSEPT5
SNP (GeneSNP Utah)SEPT5
SNP : HGBaseSEPT5
Genetic variants : HAPMAPSEPT5
Genomic Variants (DGV)SEPT5 [DGVbeta]
Mutations
ICGC Data PortalENSG00000184702 
Cancer Gene: CensusSEPT5 
Somatic Mutations in Cancer : COSMICSEPT5 
CONAN: Copy Number AnalysisSEPT5 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)22:19705958-19710845
Mutations and Diseases : HGMDsept-05
OMIM602724   
MedgenSEPT5
NextProtQ99719 [Medical]
GENETestsSEPT5
Disease Genetic Associationsept-05
Huge Navigator sept-05 [HugePedia]  sept-05 [HugeCancerGEM]
snp3D : Map Gene to Disease5413
DGIdb (Drug Gene Interaction db)SEPT5
General knowledge
Homologs : HomoloGeneSEPT5
Homology/Alignments : Family Browser (UCSC)SEPT5
Phylogenetic Trees/Animal Genes : TreeFamsept-05
Chemical/Protein Interactions : CTD5413
Chemical/Pharm GKB GenePA33486
Clinical trialSEPT5
Cancer Resource (Charite)ENSG00000184702
Other databases
Probes
Litterature
PubMed39 Pubmed reference(s) in Entrez
CoreMineSEPT5
GoPubMedSEPT5
iHOPSEPT5

Bibliography

A human gene similar to Drosophila melanogaster peanut maps to the DiGeorge syndrome region of 22q11.
McKie JM, Sutherland HF, Harvey E, Kim UJ, Scambler PJ
Human genetics. 1997 ; 101 (1) : 6-12.
PMID 9385360
 
Alternative expression of platelet glycoprotein Ib(beta) mRNA from an adjacent 5' gene with an imperfect polyadenylation signal sequence.
Zieger B, Hashimoto Y, Ware J
The Journal of clinical investigation. 1997 ; 99 (3) : 520-525.
PMID 9022087
 
Localization of a novel septin protein, hCDCrel-1, in neurons of human brain.
Caltagarone J, Rhodes J, Honer WG, Bowser R
Neuroreport. 1998 ; 9 (12) : 2907-2912.
PMID 9760144
 
Structure and expression of the human septin gene HCDCREL-1.
Yagi M, Zieger B, Roth GJ, Ware J
Gene. 1998 ; 212 (2) : 229-236.
PMID 9611266
 
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written04-2000Jean-Loup Huret

Citation

This paper should be referenced as such :
Huret, JL
SEPT5 (septin 5)
Atlas Genet Cytogenet Oncol Haematol. 2000;4(2):63-63.
Free journal version : [ pdf ]   [ DOI ]
URL : http://AtlasGeneticsOncology.org/Genes/hCDCRel-1ID220.html

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Mar 28 12:56:30 CET 2015

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