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RNF103-CHMP3 Gene

protein-coding   GIFtS: 19
GCID: GC02M086738

RNF103-CHMP3 Readthrough

(Previous name: RNF103-VPS24 readthrough)
(Previous symbol: RNF103-VPS24)
  Search for RNF103-CHMP3
at  

(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
RNF103-CHMP3 Readthrough1 2
RNF103-VPS241 2
RNF103-VPS24 Readthrough1 2
RNF103-CHMP3 Protein2
RNF103-CHMP3 Read-Through2

External Ids:    HGNC: 388471   Entrez Gene: 1005267672   Ensembl: ENSG000002498847   

Export aliases for RNF103-CHMP3 gene to outside databases


(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 RNF103-CHMP3 Gene:
This locus represents naturally occurring read-through transcription between the neighboring RNF103 (ring finger
protein 103) and CHMP3 (charged multivesicular body protein 3) genes. The read-through transcript encodes a
fusion protein that shares sequence identity with each individual gene product. (provided by RefSeq, Oct 2011)

GeneCards Summary for RNF103-CHMP3 Gene:
RNF103-CHMP3 (RNF103-CHMP3 readthrough) is a protein-coding gene. An important paralog of this gene is CHMP3.




(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 RNF103-CHMP3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RNF103-CHMP3


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

Entrez Gene cytogenetic band: 2p   Ensembl cytogenetic band:  2p11.2   HGNC cytogenetic band: 2p11.2

RNF103-CHMP3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RNF103-CHMP3 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02M086738:  view genomic region     (about GC identifiers)

Start:
86,730,553 bp from pter      End:
86,948,245 bp from pter
Size:
217,693 bases      Orientation:
minus 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, 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: --
REFSEQ proteins: NP_001185883.1  
ENSEMBL proteins: 
 ENSP00000474823   ENSP00000392995  

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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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(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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Phenotypes:
     1 GenomeRNAi human phenotype for RNF103-CHMP3:
 Increased G2M DNA content 

Animal Models:
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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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SuperPaths for RNF103-CHMP3 About    
See pathways by source

SuperPathContained pathways About
1Internalization of ErbB1
Internalization of ErbB1
2Endocytosis
Endocytosis


Find genes that share SuperPaths with RNF103-CHMP3           About GenesLikeMe

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways


1 BioSystems Pathway for RNF103-CHMP3
    Internalization of ErbB1


1 Kegg Pathway  (Kegg details for RNF103-CHMP3):
    Endocytosis

    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for RNF103-CHMP3
Interactions:

    Search GeneGlobe Interaction Network for RNF103-CHMP3

Gene Ontology (GO): 1 biological process term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0015031protein transport ----

Find genes that share ontologies with RNF103-CHMP3           About GenesLikeMe



(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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for RNF103-CHMP3 gene: 
NM_001198954.1  

2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000604011 ENST00000440757
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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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RNF103-CHMP3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
RNF103-CHMP3 Expression
About this image

RNF103-CHMP3 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 RNF103-CHMP3 gene from Selected species (see all 13)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chicken
(Gallus gallus)
Aves --
Uncharacterized protein
87(a)
1 → many
4(85169364-85173466)
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
68(a)
1 → many
6(60553158-60564677)
zebrafish
(Danio rerio)
Actinopterygii chmp36
charged multivesicular body protein 3
79(a)
1 → many
17(43513519-43521067) ENSDARG00000038064
fruit fly
(Drosophila melanogaster)
Insecta vps246
Charged multivesicular body protein 3
57(a)
1 → many
3R(135369-136667)
worm
(Caenorhabditis elegans)
Secernentea vps-246
Protein T27F7.1 (T27F7.1) mRNA, complete cds
55(a)
1 → many
II(4994033-4995607) WBGene00020866
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes VPS246
One of four subunits of the endosomal sorting comp...
28(a)
1 → many
XI(360143-360817) YKL041W
        Species with no ortholog for RNF103-CHMP3

ENSEMBL Gene Tree for RNF103-CHMP3 (if available)
TreeFam Gene Tree for RNF103-CHMP3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for RNF103-CHMP3 gene
CHMP32  

Find genes that share paralogs with RNF103-CHMP3           About GenesLikeMe



(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 RNF103-CHMP3 (see all 2139)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 2 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs3089051,2
C,F--86792824(+) tttccC/Tggact 1 -- int11Minor allele frequency- T:0.03NA 120
rs1444472661,2
--86792834(+) TATTAA/GTCTGG 1 -- int10--------
rs801701841,2
C,F--86792851(+) ATCTTT/GTCATA 1 -- int12Minor allele frequency- G:0.07CSA WA 120
rs1929262931,2
--86792993(+) AAATGA/TGGAAT 1 -- int10--------
rs1842903521,2
--86793071(+) TGGATC/TGCCAA 1 -- int10--------
rs67523711,2
C,F,A,H--86793121(+) gcattC/Ttatag 1 -- int125Minor allele frequency- T:0.35NS EA NA WA CSA 2350
rs782603221,2
C,F--86793198(+) AAACAA/GTGGTT 1 -- int12Minor allele frequency- G:0.06CSA NA 122
rs1409873211,2
C--86793210(+) TAGACA/GAAATT 1 -- int10--------
rs1875381141,2
--86793228(+) TACAAA/GTGTGC 1 -- int10--------
rs1924176211,2
--86793293(+) GACAAA/GTAAGC 1 -- int10--------

HapMap Linkage Disequilibrium report for RNF103-CHMP3 (86730553 - 86948245 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for RNF103-CHMP3: --
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing RNF103-CHMP3
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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 RNF103-CHMP3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with RNF103-CHMP3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
  2. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (PLoS ONE 2010)

(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: 100526767 HGNC: 38847 Ensembl:ENSG00000249884 euGenes: HUgn100526767 ECgene: RNF103-CHMP3 Kegg: 100526767
H-InvDB: RNF103-CHMP3

(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 RNF103-CHMP3 gene:
Search GeneIP for patents involving RNF103-CHMP3

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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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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