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UBE2F-SCLY Gene

protein-coding   GIFtS: 19
GCID: GC02P238882

UBE2F-SCLY Readthrough (NMD Candidate)

  Search for UBE2F-SCLY
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
UBE2F-SCLY Readthrough (NMD Candidate)1 2
UBE2F4
Ubiquitin-Conjugating Enzyme E2F (Putative), Isoform CRA_a4
Ubiquitin-Conjugating Enzyme E2F (Putative), Isoform CRA_g4

External Ids:    HGNC: 483391   Entrez Gene: 1005331792   Ensembl: ENSG000002589847   UniProtKB: H3BSR44   UniProtKB: H3BUI74   

Export aliases for UBE2F-SCLY gene to outside databases

Previous GC identifers: GC02U902381 GC02P238877


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for UBE2F-SCLY Gene:
This locus represents naturally occurring read-through transcription between the neighboring UBE2F
(ubiquitin-conjugating enzyme E2F) and SCLY (selenocysteine lyase) genes on chromosome 2. The read-through
transcript is a candidate for non-sense mediated mRNA decay (NMD), and is unlikely to produce a protein product.
(provided by RefSeq, Feb 2011)

GeneCards Summary for UBE2F-SCLY Gene:
UBE2F-SCLY (UBE2F-SCLY readthrough (NMD candidate)) is a protein-coding gene. An important paralog of this gene is UBE2M.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for UBE2F-SCLY
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat UBE2F-SCLY


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Ensembl cytogenetic band:  2q37.3   HGNC cytogenetic band: 2q37.3

UBE2F-SCLY Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
UBE2F-SCLY gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P238882:  view genomic region     (about GC identifiers)

Start:
238,875,587 bp from pter      End:
239,008,054 bp from pter
Size:
132,468 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/TrEMBL: H3BSR4 (See protein sequence)
Recommended Name: Protein UBE2F-SCLY  
Size: 131 amino acids; 15021 Da

UniProtKB/TrEMBL: H3BUI7 (See protein sequence)

Recommended Name: Protein UBE2F-SCLY  
Size: 73 amino acids; 8085 Da


ENSEMBL proteins: 
 ENSP00000457658   ENSP00000456827  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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2 InterPro protein domains:
 IPR000608 UBQ-conjugat_E2
 IPR016135 UBQ-conjugating_enzyme/RWD

Graphical View of Domain Structure for InterPro Entry H3BSR4
Graphical View of Domain Structure for InterPro Entry H3BUI7

ProtoNet protein and cluster: H3BSR4


UBE2F-SCLY for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0016881acid-amino acid ligase activity ----
     
UBE2F-SCLY for ontologies           About GeneDecksing


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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000449891(uc002vxm.4) ENST00000449191
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GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

UBE2F-SCLY Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of animals and fungi.

Orthologs for UBE2F-SCLY gene from Selected species (see all 12)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chicken
(Gallus gallus)
Aves UBE2F6
NEDD8-conjugating enzyme UBE2F
57(a)
1 → many
7(4527554-4590262)
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
62(a)
1 → many
1(117198570-117247629)
zebrafish
(Danio rerio)
Actinopterygii ube2f6
ubiquitin-conjugating enzyme E2F (putative)
54(a)
1 → many
1(5509737-5527331) ENSDARG00000025754
worm
(Caenorhabditis elegans)
Secernentea ubc-126
Protein UBC-12 (ubc-12) mRNA, complete cds
27(a)
1 → many
I(11911324-11912049) WBGene00006707
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBC126
Enzyme that mediates the conjugation of Rub1p, a u...
14(a)
1 → many
XII(744151-744851) YLR306W
        Species with no ortholog for UBE2F-SCLY

ENSEMBL Gene Tree for UBE2F-SCLY (if available)
TreeFam Gene Tree for UBE2F-SCLY (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for UBE2F-SCLY gene
UBE2M2  UBE2F2  
1 SIMAP similar gene for UBE2F-SCLY using alignment to 2 protein entries:     H3BSR4_HUMAN (see all proteins):
UBE2F

UBE2F-SCLY for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for UBE2F-SCLY (see all 293)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 2 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1472333921,2
--238952042(+) AGATAC/TGTTGC 1 -- int10--------
rs1156092671,2
C,F--238952056(+) CACACA/CCCCCA 1 -- int11Minor allele frequency- C:0.02WA 118
rs8214991,2
C,F,A,H--238952085(-) ATGGGG/CTGCAT 1 -- int118Minor allele frequency- C:0.12NA NS EA WA CSA 934
rs762430971,2
C,F--238952264(+) CCAACC/TGGGTA 1 -- int12Minor allele frequency- T:0.11CSA WA 120
rs1414515581,2
--238952362(+) GCCCTC/TGGGGA 1 -- int10--------
rs8214981,2
C,F,A,H--238952406(-) TCTGGA/TTGTCC 1 -- int129Minor allele frequency- T:0.13NS EA NA 3180
rs8214971,2
C,F,A,H--238952547(+) TCAGAA/GGAAGG 1 -- int134Minor allele frequency- G:0.13NS EA NA WA CSA 3184
rs1140894801,2
F--238952596(+) AGCAGG/ATGACC 1 -- int11Minor allele frequency- A:0.03WA 118
rs1166715311,2
C,F--238952633(+) AGCCAA/GGGCAA 1 -- int11Minor allele frequency- G:0.01NA 120
rs1121876881,2
C,F--238952702(+) GACTCG/ATCATC 1 -- int12Minor allele frequency- A:0.04CSA WA 120

HapMap Linkage Disequilibrium report for UBE2F-SCLY (238875587 - 239008054 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for UBE2F-SCLY (see all 11):    About this table    
Variant IDTypeSubtypePubMed ID
esv2194763CNV Deletion18987734
esv2721744CNV Deletion23290073
esv2721746CNV Deletion23290073
esv2721743CNV Deletion23290073
esv2721745CNV Deletion23290073
nsv508894CNV Insertion20534489
esv1081669CNV Insertion17803354
nsv214866CNV Loss16902084
nsv876062CNV Loss21882294
dgv4460n71CNV Loss21882294

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for UBE2F-SCLY gene integrated from 10 sources:
(articles sorted by number of sources associating them with UBE2F-SCLY)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (PLoS ONE 2010)
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 100533179 HGNC: 48339 Ensembl:ENSG00000258984 euGenes: HUgn100533179 ECgene: UBE2F-SCLY
H-InvDB: UBE2F-SCLY

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for UBE2F-SCLY gene:
Search GeneIP for patents involving UBE2F-SCLY

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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The GeneCards human gene database gene index: 1 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

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