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YPEL5 (yippee-like 5 (Drosophila))

Written2014-04Gizem Güpür, Mesut Muyan
Department of Biological Sciences, Middle East Technical University, Ankara, Turkey

(Note : for Links provided by Atlas : click)

Identity

Alias_namesyippee-like 5 (Drosophila)
Alias_symbol (synonym)CGI-127
HGNC (Hugo) YPEL5
LocusID (NCBI) 51646
Atlas_Id 44614
Location 2p23.1  [Link to chromosome band 2p23]
Location_base_pair Starts at 30369750 and ends at 30383399 bp from pter ( according to hg19-Feb_2009)  [Mapping YPEL5.png]
Local_order From centromere to telomere: FAM179A-C2orf71-CLIP4-ALK-LOC101929418-YPEL5-LBH-LOC102723594-LOC285043.
 
  Local order of YPEL5 is shown together with leading and subsequent genes on chromosome 2.
Fusion genes
(updated 2016)
PPP1CB (2p23.2) / YPEL5 (2p23.1)TJP1 (15q13.1) / YPEL5 (2p23.1)YPEL5 (2p23.1) / DGCR2 (22q11.21)
YPEL5 (2p23.1) / PPP1CB (2p23.2)

DNA/RNA

 
  Boxes show exons; filled boxes correspond to coding exons, empty boxes indicate noncoding exons. Lines connecting the boxes represent introns.
Description YPEL5 has 5 exons.
Transcription YPEL5 has 4 transcript variants.
Transcript variant 1: 2639 bp mRNA (NCBI Reference Sequence: NM_001127401.1).
Transcript variant 2: 2578 bp mRNA (NCBI Reference Sequence: NM_001127400.1).
Transcript variant 3: 2342 bp mRNA (NCBI Reference Sequence: NM_001127399.1).
Transcript variant 4: 2281 bp mRNA (NCBI Reference Sequence: NM_016061.2).

Protein

Description All 4 transcript variants code for the same protein. Protein yippee-like 5 [Homo sapiens] (NCBI Reference Sequence: NP_001120873.1); 121 aa protein.
Expression In human, YPEL5 is expressed in the brain, heart, kidney, lung, pancreas, placenta, skeletal muscle, colon, ovary, leukocyte, prostate, small intestine, spleen, testis, thymus, bone marrow, leukocyte, tonsil, fetal brain, fetal heart, fetal kidney, fetal liver, fetal lung, fetal skeletal muscle, fetal spleen and fetal thymus (Hosono et al., 2004).
Localisation Localized in the nucleus in a diffuse pattern, Ypel5 re-localizes in a region between two spindle poles, likely on the mitotic spindle during mitosis, suggesting a possible role in cell division (Hosono et al., 2004). Ypel5 is localized in the nucleus and on the centrosome during interphase. At prophase, it is detected at spindle poles, while during metaphase and early anaphase it becomes associated with mitotic spindle. At mid-anaphase and telophase it is localized in the spindle midzone. During cytokinesis, Ypel5 is observed only on the midbody (Hosono et al., 2010).
Function Knock-down of YPEL5 in Cos7 cells results in the suppression of cell growth by extending durations of G1 and G2+M phases. Ypel5 was shown to interact, yet by an unknown mechanism, with Ran binding protein in the microtubule organizing center (RanBPM) through SPRY domain of RanBPM. Ypel5 could also bind RanBP10, paralog of RanBPM. Ypel5 is suggested to function in cell division and cell cycle progression through interactions with RanBPM and RanBP10 (Hosono et al., 2010).
Furthermore, knockdown of YPEL5 homolog Ypel-b in medaka fish causes a malformation in embryos. Normal embryogenesis is interrupted in these embryos as a result of suppression of cell proliferation and induction of apoptosis (Hosono et al., 2010).
YPEL5 is expressed in human peripheral T cells in G0 stage and it is down-regulated upon activation by immobilized anti-CD3. In addition, transfection of YPEL5 into HeLa cells causes a decrease in cellular proliferation (Jun et al., 2007).
Homology In human, YPEL5 has 4 paralogs; YPEL1, YPEL2, YPEL3 and YPEL4. Ypel5 has 49.5% aminoacid sequence identity with Ypel1; 48.5% with Ypel2; 43.8% with Ypel3 and 44.6% with Ypel4 (Hosono et al., 2004).
Ypel5 is an ortholog of Drosophila Yippee protein and has 70.8% aminoacid sequence identity to Yippee. There are 100 YPEL family genes in 68 species including mammal, bird, amphibia, fish, protochordate, insect, nematode, coelenterate, echinoderm, protozoan, plant, and fungi. In this diverge range of organisms, YPEL family proteins shows a high level of homology with many identical residues. Thus, a consensus sequence is deduced as follows: C-X2-C-X19-G-X3-L-X5-N-X13-G-X8-C-X2-C-X4-GWXY-X10-K-X6-E. In the consensus sequence, the number of non-consensus residues, designated as X, is identical for all species examined (Hosono et al., 2004).

Implicated in

Note
Entity Lung cancer
Note Treatment of A549 human non-small cell lung carcinoma cell line with ethanolic extract of Descurainia sophia seeds causes a dose dependent up-regulation in YPEL5 mRNA levels (Kim et al., 2013).
Prognosis YPEL5 is found to be related to survival in lung cancer patients with a hazard ratio of 0.62 (Kim et al., 2013).
  
Entity Chronic lymphocytic leukemia (CLL)
Abnormal Protein Reciprocal RNA chimeras of YPEL5 and PPP1CB genes are recurrently and exclusively detected in chronic lymphocytic leukemia. YPEL5/PPP1CB and PPP1CB/YPEL5 chimeras form as a result of an intergenic splicing event and there is no genomic basis for this fusion which marks a possible breakpoint. YPEL5/PPP1CB RNA chimera results in the formation of a truncated PPP1CB protein which shows a decreased phosphatase activity. This RNA chimeric fusion product acts a dominant negative protein that inhibits the function of wild type PPP1CB protein. This results in an enhanced proliferation and colony formation in B-CLL-related cells (Velusamy et al., 2013).
  

Bibliography

YPEL5 protein of the YPEL gene family is involved in the cell cycle progression by interacting with two distinct proteins RanBPM and RanBP10.
Hosono K, Noda S, Shimizu A, Nakanishi N, Ohtsubo M, Shimizu N, Minoshima S.
Genomics. 2010 Aug;96(2):102-11. doi: 10.1016/j.ygeno.2010.05.003. Epub 2010 May 24.
PMID 20580816
 
Identification and characterization of a novel gene family YPEL in a wide spectrum of eukaryotic species.
Hosono K, Sasaki T, Minoshima S, Shimizu N.
Gene. 2004 Sep 29;340(1):31-43.
PMID 15556292
 
Expression of Yippee-Like 5 (YPEL5) Gene During Activation of Human Peripheral T Lymphocytes by Immobilized Anti-CD3.
Jun DY, Park HW, Kim YH.
Journal of Life Science. 2007;17(12): 1641-8.
 
Gene Expression Profile of the A549 Human Non-Small Cell Lung Carcinoma Cell Line following Treatment with the Seeds of Descurainia sophia, a Potential Anticancer Drug.
Kim BY, Lee J, Park SJ, Bang OS, Kim NS.
Evid Based Complement Alternat Med. 2013;2013:584604. doi: 10.1155/2013/584604. Epub 2013 Jun 27.
PMID 23935669
 
Recurrent reciprocal RNA chimera involving YPEL5 and PPP1CB in chronic lymphocytic leukemia.
Velusamy T, Palanisamy N, Kalyana-Sundaram S, Sahasrabuddhe AA, Maher CA, Robinson DR, Bahler DW, Cornell TT, Wilson TE, Lim MS, Chinnaiyan AM, Elenitoba-Johnson KS.
Proc Natl Acad Sci U S A. 2013 Feb 19;110(8):3035-40. doi: 10.1073/pnas.1214326110. Epub 2013 Feb 4.
PMID 23382248
 

Citation

This paper should be referenced as such :
G Güpür, M Muyan
YPEL5 (yippee-like 5 (Drosophila))
Atlas Genet Cytogenet Oncol Haematol. 2015;19(1):41-43.
Free journal version : [ pdf ]   [ DOI ]
On line version : http://AtlasGeneticsOncology.org/Genes/YPEL5ID44614ch2p23.html


External links

Nomenclature
HGNC (Hugo)YPEL5   18329
Cards
AtlasYPEL5ID44614ch2p23
Entrez_Gene (NCBI)YPEL5  51646  yippee like 5
AliasesCGI-127
GeneCards (Weizmann)YPEL5
Ensembl hg19 (Hinxton)ENSG00000119801 [Gene_View]  chr2:30369750-30383399 [Contig_View]  YPEL5 [Vega]
Ensembl hg38 (Hinxton)ENSG00000119801 [Gene_View]  chr2:30369750-30383399 [Contig_View]  YPEL5 [Vega]
ICGC DataPortalENSG00000119801
TCGA cBioPortalYPEL5
AceView (NCBI)YPEL5
Genatlas (Paris)YPEL5
WikiGenes51646
SOURCE (Princeton)YPEL5
Genetics Home Reference (NIH)YPEL5
Genomic and cartography
GoldenPath hg19 (UCSC)YPEL5  -     chr2:30369750-30383399 +  2p23   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)YPEL5  -     2p23   [Description]    (hg38-Dec_2013)
EnsemblYPEL5 - 2p23 [CytoView hg19]  YPEL5 - 2p23 [CytoView hg38]
Mapping of homologs : NCBIYPEL5 [Mapview hg19]  YPEL5 [Mapview hg38]
OMIM609726   
Gene and transcription
Genbank (Entrez)AB098739 AF135161 AF151885 AF172940 AK025730
RefSeq transcript (Entrez)NM_001127399 NM_001127400 NM_001127401 NM_016061
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)YPEL5
Cluster EST : UnigeneHs.515890 [ NCBI ]
CGAP (NCI)Hs.515890
Alternative Splicing GalleryENSG00000119801
Gene ExpressionYPEL5 [ NCBI-GEO ]   YPEL5 [ EBI - ARRAY_EXPRESS ]   YPEL5 [ SEEK ]   YPEL5 [ MEM ]
Gene Expression Viewer (FireBrowse)YPEL5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51646
GTEX Portal (Tissue expression)YPEL5
Protein : pattern, domain, 3D structure
UniProt/SwissProtP62699   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP62699  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP62699
Splice isoforms : SwissVarP62699
PhosPhoSitePlusP62699
Domaine pattern : Prosite (Expaxy)YIPPEE (PS51792)   
Domains : Interpro (EBI)Yippee/Mis18/Cereblon   
Domain families : Pfam (Sanger)Yippee-Mis18 (PF03226)   
Domain families : Pfam (NCBI)pfam03226   
Conserved Domain (NCBI)YPEL5
DMDM Disease mutations51646
Blocks (Seattle)YPEL5
SuperfamilyP62699
Human Protein AtlasENSG00000119801
Peptide AtlasP62699
HPRD18312
IPIIPI00429538   
Protein Interaction databases
DIP (DOE-UCLA)P62699
IntAct (EBI)P62699
FunCoupENSG00000119801
BioGRIDYPEL5
STRING (EMBL)YPEL5
ZODIACYPEL5
Ontologies - Pathways
QuickGOP62699
Ontology : AmiGOmetal ion binding  
Ontology : EGO-EBImetal ion binding  
REACTOMEP62699 [protein]
REACTOME PathwaysR-HSA-6798695 [pathway]
NDEx NetworkYPEL5
Atlas of Cancer Signalling NetworkYPEL5
Wikipedia pathwaysYPEL5
Orthology - Evolution
OrthoDB51646
GeneTree (enSembl)ENSG00000119801
Phylogenetic Trees/Animal Genes : TreeFamYPEL5
HOVERGENP62699
HOGENOMP62699
Homologs : HomoloGeneYPEL5
Homology/Alignments : Family Browser (UCSC)YPEL5
Gene fusions - Rearrangements
Fusion : MitelmanPPP1CB/YPEL5 [2p23.2/2p23.1]  [t(2;2)(p23;p23)]  
Fusion : MitelmanYPEL5/PPP1CB [2p23.1/2p23.2]  [t(2;2)(p23;p23)]  
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerYPEL5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)YPEL5
dbVarYPEL5
ClinVarYPEL5
1000_GenomesYPEL5 
Exome Variant ServerYPEL5
ExAC (Exome Aggregation Consortium)YPEL5 (select the gene name)
Genetic variants : HAPMAP51646
Genomic Variants (DGV)YPEL5 [DGVbeta]
DECIPHER (Syndromes)2:30369750-30383399  ENSG00000119801
CONAN: Copy Number AnalysisYPEL5 
Mutations
ICGC Data PortalYPEL5 
TCGA Data PortalYPEL5 
Broad Tumor PortalYPEL5
OASIS PortalYPEL5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICYPEL5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDYPEL5
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
BioMutasearch YPEL5
DgiDB (Drug Gene Interaction Database)YPEL5
DoCM (Curated mutations)YPEL5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)YPEL5 (select a term)
intoGenYPEL5
NCG5 (London)YPEL5
Cancer3DYPEL5(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609726   
Orphanet
MedgenYPEL5
Genetic Testing Registry YPEL5
NextProtP62699 [Medical]
TSGene51646
GENETestsYPEL5
Huge Navigator YPEL5 [HugePedia]
snp3D : Map Gene to Disease51646
BioCentury BCIQYPEL5
ClinGenYPEL5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51646
Chemical/Pharm GKB GenePA134863727
Clinical trialYPEL5
Miscellaneous
canSAR (ICR)YPEL5 (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineYPEL5
EVEXYPEL5
GoPubMedYPEL5
iHOPYPEL5
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Jan 21 16:48:43 CET 2017

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