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PADI6 Gene

protein-coding   GIFtS: 44

GC01P017571
peptidyl arginine deiminase, type VI
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
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Aliases &
Descriptions
for PADI6

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section
Aliases
EC 3.5.3.15 3
Descriptions
Peptidylarginine deiminase VI 3
Protein-arginine deiminase type VI 3
peptidyl arginine deiminase, type VI 2
peptidylarginine deiminase type 6 2
External Ids
HGNC: 204491
Entrez Gene: 3532382
UniProtKB: Q6TGC43
Ensembl: ENSG000001979967
Search outside databases for aliases for PADI6 gene

Previous GC identifers: GC00U911624 GC01U901038 GC01P017444

Summaries
for PADI6

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

 EntrezGene summary for PADI6:
Peptidylarginine deiminases (PADs, EC 3.5.3.15), including PADI6, make up a family of
posttranslational protein modification enzymes that convert arginine residues to citrulline
residues in the presence of calcium ions.[supplied by OMIM]

UniProtKB/Swiss-Prot: PADI6_HUMAN, Q6TGC4
Function: Catalyzes the deimination of arginine residues of proteins. May be involved in
cytoskeletal reorganization in the egg and early embryo (By similarity)

Genomic Location
for PADI6

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

 Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the PADI6 gene  

Entrez Gene cytogenetic band: 1p36.13   Ensembl cytogenetic band:  1p36.13   HGNC cytogenetic band: 1p36.13

PADI6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P017571:     (about GC identifiers)

Start:
 17,571,328 bp from pter
End:
 17,600,782 bp from pter
Size:
 29,455 bases
Orientation:
 plus strand
RefSeq DNA sequence:
NC_000001.9  NT_004610.18  

Proteins
for PADI6

(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

 UniProtKB/Swiss-Prot: PADI6_HUMAN, Q6TGC4 (See protein sequence)
Recommended Name: Protein-arginine deiminase type-6  
Size: 686 amino acids; 76897 Da
Cofactor: Calcium (By similarity)
Subcellular location: Cytoplasm (By similarity). Nucleus (By similarity)
Secondary accessions: Q70SX3

REFSEQ proteins: NP_997304.3  

ENSEMBL proteins: 
ENSP00000351268 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
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Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (PADI6)
Browse Abnova for Human Recombinant Proteins
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

3 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005634 nucleus IEA--
GO:0005737 cytoplasm IEA--
GO:0045111 intermediate filament cytoskeleton IEA--
About this table

Antibodies for PADI6: 
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Antibodies from Abcam (PADI6), each with their AbpromiseSM
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Search Novus for antibodies for PADI6

Assays for PADI6: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

Protein Domains/
Families
for PADI6

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
5 InterPro domains/families:
 IPR013732 PAD_N
 IPR004303 PAD
 IPR016296 Protein-arginine_deiminase_sub
 IPR013530 PAD_C
 IPR013733 PAD_central


   GeneDecks  PADI6 for the domains selected above  
About GeneDecksing

Graphical View of Domain Structure for InterPro Entry Q6TGC4

ProtoNet protein and cluster: Q6TGC4

1 Blocks protein family: IPB004303 Protein-arginine deiminase

UniProtKB/Swiss-Prot: PADI6_HUMAN, Q6TGC4
Similarity: Belongs to the protein arginine deiminase family

Gene Function
for PADI6

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section
Inhib.
RNA:		Invitrogen RNAi Products for gene knock-down (PADI6)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (PADI6)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_207421

              Applied Biosystems Silencer® siRNAs for PADI6

              Sigma-Aldrich siRNA for PADI6  
                     Browse shRNA at Sigma-Aldrich  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Browse Clone Ranger at Invitrogen for clones
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_207421
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_207421
                                 untagged cDNA clone in CMV expression vector: NM_207421 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_207421

UniProtKB/Swiss-Prot: PADI6_HUMAN, Q6TGC4
Function: Catalyzes the deimination of arginine residues of proteins. May be involved in
cytoskeletal reorganization in the egg and early embryo (By similarity)
Catalytic activity: Protein L-arginine + H(2)O = protein L-citrulline + NH(3)
Enzyme Number (IUBMB): EC 3.5.3.15 

3 MGI mutant phenotypes (inferred from 2 alleles) (MGI details for Padi6):

embryogenesisno phenotypic analysisreproductive system

3 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0004668 protein-arginine deiminase activity IEA--
GO:0005509 calcium ion binding IEA--
GO:0016787 hydrolase activity IEA--
About this table

Pathways & Interactions
for PADI6

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section


  --

2 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006464 protein modification process IEA--
GO:0018101 peptidyl-citrulline biosynthetic process from peptidyl-arginine IEA--
About this table

Drugs & Compounds
for PADI6

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for PADI6

Transcripts
for PADI6

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section
Inhib.
RNA:		Invitrogen RNAi Products for gene knock-down (PADI6)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (PADI6)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_207421

              Sigma-Aldrich siRNA for PADI6  
                     Browse shRNA at Sigma-Aldrich  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_207421  

REFSEQ mRNAs for PADI6 gene: 

NM_207421.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_207421  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_207421
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_207421
                                 untagged cDNA clone in CMV expression vector: NM_207421 

Additional cDNA sequence: 

AY422079.1 AY443100.1 

2 DOTS entries:

DT.102819972  DT.121442582 

2 AceView cDNA sequences:

AY422079 NM_207421 

highest scoring ESTs for PADI6:

AY422079 NM_207421 AY443100 DN831283 DN831284 

Unigene Cluster for PADI6:

Peptidyl arginine deiminase, type VI
Hs.531598  [show with all ESTs]
Unigene Representative Sequence: AY443100


GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:
ENST00000358481  

Expression
for PADI6

(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

PADI6 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for PADI6

1Data from GNF BioGPS
    About these images

About these images

CGAP SAGE TAG: ATTCTTTGCC

SOURCE GeneReport for Unigene cluster: Hs.531598

UniProtKB/Swiss-Prot: PADI6_HUMAN, Q6TGC4
Tissue specificity: Ovary, testis and peripheral blood leukocytes

Orthologs
for PADI6

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section
Orthologs for PADI6 gene from 5 species
Organism Gene Locus Description Human
Similarity		 NCBI accessions
dog
(Canis familiaris)		 PADI61   -- peptidyl arginine deiminase, type VI 81.23(n)
77.28(a)		 487413  XM_544538.2  XP_544538.2 
chimpanzee
(Pan troglodytes)		 PADI61   -- peptidyl arginine deiminase, type VI 99.37(n)
99.42(a)		 469179  XM_524564.2  XP_524564.2 
cow
(Bos taurus)		 PADI61   -- peptidyl arginine deiminase, type VI 77.13(n)
71.51(a)		 531084  XM_609569.3  XP_609569.3 
rat
(Rattus norvegicus)		 Padi61   -- peptidyl arginine deiminase, type VI 75.16(n)
70.13(a)		 298595  XM_233601.3  XP_233601.3 
mouse
(Mus musculus)		 Padi61, 5 4 (71.00 cM)5
 peptidyl arginine deiminase, type VI1, 5 74.54(n)1
67.74(a)1		 2427261  NM_153106.21  NP_694746.21 
 AA6454985  AB1216925  (see all 13)
About this table        Species with no ortholog for PADI6

ENSEMBL Gene Tree for PADI6

Paralogs
for PADI6

(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for PADI6 gene
PADI22  PADI42  PADI12  PADI32  

SNPs/Variants
for PADI6

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/313 NCBI SNPs in PADI6 are shown (see all 313 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 135)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 1 posSequenceRecsAA
Chg		TypeMoreRecsAllele
freq		PopTotal
sample		More
------------
rs12048751,2
A,C,F,H,O17570941(-) CTGTCG/AGGGCA 1 -- ng517Minor allele frequency- A:0.07EU EA WA NA 528
rs12048761,2
A,C,F,H17570896(-) GTAGCA/GGTCAG 1 -- ng518Minor allele frequency- G:0.27EU EA WA NA 760
rs25268301,2
A,C,F,H17600706(-) CCCCAC/TAGGGG 1 -- ut31 ese34Minor allele frequency- T:0.39EU EA WA 412
rs12048801,2
A,F,H17569644(-) ccttcG/Aaggtt 1 -- ng514Minor allele frequency- A:0.03EU EA WA 414
rs127531291,2
C,F,H17569530(+) GATAAC/ACCAAT 1 -- ng518Minor allele frequency- A:0.22EU EA WA 840
rs127603471,2
A,F,H17569328(+) GATACA/GAAGAA 1 -- ng514Minor allele frequency- G:0.22EU EA WA 416
--
rs21076811,2
A,C17570126(-) actccA/Gttacc 1 -- ng510--------
--
rs12048771,2
A,C17570587(-) aggctA/Ggtctc 1 -- ng510--------
--
rs12048791,2
A,C17570159(-) tttttG/Tttgtt 1 -- ng510--------
rs25268291,2
A,C17600818(-) TCACTC/TATCCC 1 -- ng310--------
About this table

HapMap Linkage Disequilibrium images for PADI6 (up to first 250kb)

Disorders & Mutations
for PADI6

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

 OMIM: 610363

Human Genome Epidemiology Navigator: PADI6 (1 document)

Medical News
for PADI6

(Possibly Related Articles in Doctor's Guide)
About This Section

   --

Publications
for PADI6

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

4 PubMed articles for PADI6 gene:

Search for PADI6

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

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

Genome Databases showing PADI6

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section
Entrez Gene: 353238 HGNC: 20449 AceView: PADI6 Ensembl:ENSG00000197996 euGenes: HUgn353238
ECgene: PADI6 H-InvDB: PADI6

Other Databases showing PADI6

(According to HUGE)
About This Section

   --

Specialized Databases showing PADI6

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

   --

Licensable Technologies
for PADI6

(Available from WIS Yeda, Salk, Tufts)
About This Section

  --

Services
for PADI6

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for PADI6:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Millipore Preclinical / Clinical Development Services
 Millipore Immunoassay Services
 Millipore Target Screening & Profiling Services


 Predesigned and custom siRNAs for PADI6 Browse antibodies at Sigma-Aldrich
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Browse shRNAs at Sigma-Aldrich Browse small molecules at Sigma-Aldrich
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 Search Novus for antibodies for PADI6

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