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ATP5J2-PTCD1 Gene

protein-coding   GIFtS: 24
GCID: GC07M099018

ATP5J2-PTCD1 Readthrough

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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
ATP5J2-PTCD1 Readthrough1 2
ATP5J2-PTCD1 Fusion Protein2
ATP5J2-PTCD1 Read-Through Transcript2
PTCD14
Protein ATP5J2-PTCD14

External Ids:    HGNC: 388441   Entrez Gene: 1005267402   Ensembl: ENSG000002489197   UniProtKB: C9JJT54   UniProtKB: G3V3254   

Export aliases for ATP5J2-PTCD1 gene to outside databases

Previous GC identifer: GC07U903082


(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 ATP5J2-PTCD1 Gene:
This locus represents naturally occurring read-through transcription between the ATP5J2 (ATP synthase, H+
transporting, mitochondrial Fo complex, subunit F2) and PTCD1 (pentatricopeptide repeat domain 1) genes on
chromosome 7. The read-through transcript encodes a fusion protein that shares sequence identity with each
individual gene product. (provided by RefSeq, Nov 2010)

GeneCards Summary for ATP5J2-PTCD1 Gene:
ATP5J2-PTCD1 (ATP5J2-PTCD1 readthrough) is a protein-coding gene. An important paralog of this gene is PTCD1.




(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 ATP5J2-PTCD1
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): ATP5J2-PTCD1 promoter sequence
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ATP5J2-PTCD1


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

Entrez Gene cytogenetic band: 7q   Ensembl cytogenetic band:  7q22.1   HGNC cytogenetic band: 7q22.1

ATP5J2-PTCD1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ATP5J2-PTCD1 gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M099018:  view genomic region     (about GC identifiers)

Start:
99,014,362 bp from pter      End:
99,063,824 bp from pter
Size:
49,463 bases      Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 98,374,136-98,423,596     

(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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/TrEMBL: C9JJT5 (See protein sequence)
Recommended Name: Protein ATP5J2-PTCD1  
Size: 54 amino acids; 5915 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered
as preliminary data

UniProtKB/TrEMBL: G3V325 (See protein sequence)

Recommended Name: Pentatricopeptide repeat-containing protein 1, mitochondrial  
Size: 749 amino acids; 84110 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered
as preliminary data

Explore proteomics data for ATP5J2-PTCD1 at MOPED


See ATP5J2-PTCD1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001185808.1  
ENSEMBL proteins: 
 ENSP00000400168   ENSP00000416954  

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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:
 IPR019344 F1F0-ATPsyn_F_prd
 IPR002885 Pentatricopeptide_repeat

Graphical View of Domain Structure for InterPro Entry C9JJT5
Graphical View of Domain Structure for InterPro Entry G3V325

ProtoNet protein and cluster: C9JJT5


Find genes that share domains with ATP5J2-PTCD1           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0000049tRNA binding ----
     
Find genes that share ontologies with ATP5J2-PTCD1           About GenesLikeMe


Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for ATP5J2-PTCD1

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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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Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005739mitochondrion ----
GO:0005759mitochondrial matrix ----

Find genes that share ontologies with ATP5J2-PTCD1           About GenesLikeMe


(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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Interactions:

    Search GeneGlobe Interaction Network for ATP5J2-PTCD1

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

GO IDQualified GO termEvidencePubMed IDs
GO:0042780tRNA 3'-end processing ----

Find genes that share ontologies with ATP5J2-PTCD1           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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Browse Tocris compounds for ATP5J2-PTCD1



(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 ATP5J2-PTCD1 gene: 
NM_001198879.1  

3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000413834 ENST00000437572 ENST00000451138
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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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ATP5J2-PTCD1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
ATP5J2-PTCD1 Expression
About this image

ATP5J2-PTCD1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

ATP5J2-PTCD1 Protein Expression
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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.

Orthologs for ATP5J2-PTCD1 gene from Selected species (see all 13)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Ptcd11 , 5 pentatricopeptide repeat domain 11, 5 79.52(n)1
74.53(a)1
  5 (85.06 cM)5
717991  NM_133735.21  NP_598496.31 
 1451475145 
chicken
(Gallus gallus)
Aves PTCD11 pentatricopeptide repeat domain 1 63.01(n)
61.93(a)
  416493  XM_414799.4  XP_414799.4 
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
53(a)
1 → many
GL343725.1(237232-254715)
tropical clawed frog
(Xenopus tropicalis)
Amphibia ptcd11 pentatricopeptide repeat domain 1 57.17(n)
52.83(a)
  100135205  XM_002931521.2  XP_002931567.1 
zebrafish
(Danio rerio)
Actinopterygii ptcd11 pentatricopeptide repeat domain 1 55.15(n)
48.6(a)
  570247  XM_693706.5  XP_698798.2 
fruit fly
(Drosophila melanogaster)
Insecta CG46111 CG4611 48.84(n)
34.46(a)
  38601  NM_139692.3  NP_647949.1 


ENSEMBL Gene Tree for ATP5J2-PTCD1 (if available)
TreeFam Gene Tree for ATP5J2-PTCD1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for ATP5J2-PTCD1 gene
PTCD12  
2 SIMAP similar genes for ATP5J2-PTCD1 using alignment to 2 protein entries:     C9JJT5_HUMAN (see all proteins):
PTCD1    ATP5J2

Find genes that share paralogs with ATP5J2-PTCD1           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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Structural Variations
     Database of Genomic Variants (DGV) 5 variations for ATP5J2-PTCD1:    About this table    
Variant IDTypeSubtypePubMed ID
esv2734882CNV Deletion23290073
nsv5864CNV Insertion18451855
dgv7397n71CNV Loss21882294
dgv7396n71CNV Loss21882294
nsv831069CNV Loss17160897

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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 ATP5J2-PTCD1 gene integrated from 10 sources:
(articles sorted by number of sources associating them with ATP5J2-PTCD1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
  2. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (PLoS ONE 2010)
  3. The DNA sequence of human chromosome 7. (PubMed id 12853948)1 Hillier L.W.... Wilson R.K. (Nature 2003)
  4. Toward a complete human genome sequence. (PubMed id 9847074)1 Sulston J.E. and Waterston R. (Genome Res. 1998)

(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: 100526740 HGNC: 38844 Ensembl:ENSG00000248919 euGenes: HUgn100526740 ECgene: ATP5J2-PTCD1
H-InvDB: ATP5J2-PTCD1

(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 ATP5J2-PTCD1 gene:
Search GeneIP for patents involving ATP5J2-PTCD1

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, eBioscience, antibodies-online, 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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