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OGFOD1 Gene

protein-coding   GIFtS: 47

GC16P055043
2-oxoglutarate and iron-dependent oxygenase domain containing 1
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
EC 1.14.11.- 3
FLJ10826 1, 2
KIAA1612 1, 2, 3
TPA1 1, 2, 3
Descriptions
2-oxoglutarate and iron-dependent oxygenase domain
containing 1 2
TPA1, termination and polyadenylation 1, homolog 2
Termination and polyadenylation 1 homolog 3
External Ids
HGNC: 255851
Entrez Gene: 552392
UniProtKB: Q8N5433
Ensembl: ENSG000000872637
Search outside databases for aliases for OGFOD1 gene

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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  --
(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)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the OGFOD1 gene  

Entrez Gene cytogenetic band: 16q13   Ensembl cytogenetic band:  16q13   HGNC cytogenetic band: 16q12.2

OGFOD1 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 16         GeneLoc Exon Structure

GeneLoc location for GC16P055043:     (about GC identifiers)

Start:
55,042,925 bp from pter
End:
55,068,908 bp from pter
Size:
25,984 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000016.8  NT_010498.15  
(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)
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UniProtKB/Swiss-Prot: OGFD1_HUMAN, Q8N543 (See protein sequence)
Recommended Name: 2-oxoglutarate and iron-dependent oxygenase domain-containing protein 1  
Size: 542 amino acids; 63246 Da
Cofactor: Binds 1 Fe(2+) ion per subunit (By similarity)
Cofactor: Ascorbate (By similarity)
Secondary accessions: Q9H7U5 Q9H9J9 Q9HA87 Q9HCG0 Q9NVB6
Alternative splicing: 2 isoforms:  Q8N543-1   Q8N543-2   

REFSEQ proteins: NP_060703.3  

ENSEMBL proteins: 
ENSP00000337196 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (OGFOD1)
Human Recombinant Proteins from Abnova (FLJ10826)
              OriGene Purified Recombinant Human Protein: OGFOD1 

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

GO IDQualified GO termEvidencePubMed IDs
GO:0005634 nucleus IDA18029348
GO:0005737 cytoplasm IDA18029348
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Antibodies for OGFOD1: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for OGFOD1
Browse R&D Systems for Antibodies
Antibodies from Abcam (OGFOD1), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (FLJ10826)
Novus Biologicals Antibody for OGFOD1

Assays for OGFOD1: 
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

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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3 InterPro domains/families:
 IPR019601 Oxoglutarate/Fe-dep_Oase_C
 IPR006620 Pro_4_hyd_alph
 IPR005123 Oxoglutarate/Fe-dep_Oase


   GeneDecks  OGFOD1 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry Q8N543

ProtoNet protein and cluster: Q8N543

UniProtKB/Swiss-Prot: OGFD1_HUMAN, Q8N543
Similarity: Belongs to the TPA1 family
Similarity: Contains 1 PKHD (prolyl/lysyl hydroxylase) domain

(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.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (OGFOD1)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_018233

              Applied Biosystems Silencer® siRNAs for OGFOD1

              Sigma-Aldrich siRNA for OGFOD1  
                     Sigma-Aldrich shRNA for OGFOD1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for OGFOD1
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_018233
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_018233
                                 untagged cDNA clones in CMV expression vector (see all 3): AK022752 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_001031707

5/6 Gene Ontology (GO) molecular function terms (links to tree view) (see all 6 ):

GO IDQualified GO termEvidencePubMed IDs
GO:0005506 iron ion binding IEA--
GO:0016491 oxidoreductase activity IEA--
GO:0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen IEA--
GO:0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors IEA--
GO:0031418 L-ascorbic acid binding IEA--
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(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.)
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  --

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

GO IDQualified GO termEvidencePubMed IDs
GO:0019538 protein metabolic process IEA--
GO:0055114 oxidation reduction IEA--
About this table
(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 OGFOD1

(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 (OGFOD1)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_018233

              Sigma-Aldrich siRNA for OGFOD1  
                     Sigma-Aldrich shRNA for OGFOD1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_018233  

REFSEQ mRNAs for OGFOD1 gene: 

NM_018233.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_018233  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_018233
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_018233
                                 untagged cDNA clones in CMV expression vector (see all 3): AK022752 

Additional cDNA sequence: 

AK001688.1 AK022130.1 AK022752.1 AK024314.1 AK304584.1 BC032919.1 CR615197.1 

16 DOTS entries:

DT.100827819  DT.409937  DT.100827810  DT.101957248  DT.100827814  DT.95100255  DT.40286882  DT.92445989 
DT.92445990  DT.100827821  DT.120658066  DT.91656989  DT.92046014  DT.120658043  DT.120658136  DT.99974119 

24/212 AceView cDNA sequences (see all 212 ):

BQ004313 AA130350 BQ011602 AW009880 BM996096 BQ643178 BM827760 AL708454 
AB046832 AA007182 BQ430151 AJ709422 BI520306 CA427497 AI817242 CB113222 
BX327322 AI754257 AU134133 CR615197 BM470550 CB305602 AL711389 BQ424365 

highest scoring ESTs for OGFOD1:

AI817242 AA100168 AA292623 AA476604 AA974480 AI537335 AI650554 AI795987 AI913817 AK001688 

Unigene Cluster for OGFOD1:

2-oxoglutarate and iron-dependent oxygenase domain containing 1
Hs.231883  [show with all ESTs]
Unigene Representative Sequence: NM_018233


GeneLoc Exon Structure

5 Alternative Splicing Database (ASD) splice patterns (SP) for OGFOD1

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13
SP1:                                            -                                                                     
SP2:                                -           -                                                                     
SP3:                                            -                                                                     
SP4:                                            -     -                                                               
SP5:                                                                                                                  

About this scheme

ECgene alternative splicing isoforms for OGFOD1

1 Ensembl transcript including schematic representation:
ENST00000336111  
(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 )
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OGFOD1 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for OGFOD1

1 / 2 / 3

11 probe-sets matching OGFOD1 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

60897_at2, 3 U95-C 1 1.00 1.00 0.83 1.18 AA650356 0.60 1.00 0.82 1
49211_s_at2, 3 U95-B 1 1.00 1.00 0.97 0.83 AI817242 1.00 1.00 1.00 1

80882_at2, 3 U95-E 3 1.00 0.88 0.81 0.99 AA536054 0.60 1.00 0.82 1

225110_at2, 3 U133-B 1 1.00 1.00 -- -- AK024314 0.80 1.00 0.91 1

221090_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_018233 0.60 1.00 0.82 1

225109_at2, 3 U133-B 1 1.00 1.00 -- -- AB046832 0.60 1.00 0.82 1

225106_s_at2, 3 U133-B 3 1.00 0.88 -- -- AK022130 0.80 1.00 0.91 1

225110_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

221090_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

225109_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

225106_s_at2 U133Plus2 3 1.00 0.88 -- -- -- -- -- -- --
GeneDecks  OGFOD1 for binary patterns associated with the probe-sets selected above  
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Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.231883
(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 OGFOD1 gene from 5/12 species (see all 12 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
OGFOD11   -- 2-oxoglutarate and iron-dependent oxygenase domain more 90.1(n)
89.11(a)
478122  XM_535297.2  XP_535297.2 
chimpanzee
(Pan troglodytes)
OGFOD11   -- 2-oxoglutarate and iron-dependent oxygenase domain more 99.14(n)
98.34(a)
454101  XM_001135632.1  XP_001135632.1 
cow
(Bos taurus)
OGFOD11   -- 2-oxoglutarate and iron-dependent oxygenase domain more 87.38(n)
88.13(a)
514141  XM_863834.2  XP_868927.1 
rat
(Rattus norvegicus)
Ogfod11   -- 2-oxoglutarate and iron-dependent oxygenase domain more 83.64(n)
83.21(a)
307657  XM_226262.4  XP_226262.4 
mouse
(Mus musculus)
Ogfod11, 5 85
2-oxoglutarate and iron-dependent oxygenase domain more1, 5 84.22(n)1
83.27(a)1
2700861  NM_177767.31  NP_808435.21 
 AA3871995  AA9399125  (see all 19)
About this table        Species with no ortholog for OGFOD1

ENSEMBL Gene Tree for OGFOD1
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

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


10/83 NCBI SNPs in OGFOD1 are shown (see all 83 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 45)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 16 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs71985241,2
A,C,F,H55068102(+) catacT/Cttttg 1 -- ut317Minor allele frequency- C:0.28EU EA WA NA 562
rs47839411,2
A,C,F,H55069237(+) TTAACC/TACTCT 1 -- ng31 ese34Minor allele frequency- T:0.27EU EA WA 410
--
rs143061,2
A,C,F,H55067800(-) AGTACG/TTAGCT 1 -- ut31 ese38Minor allele frequency- T:0.30MN EU EA WA NA 744
rs32281,2
A,C,F,H55068746(-) GAATAA/CTACTA 1 -- ut3116Minor allele frequency- C:0.32MN EU EA WA NA 5884
--
rs104385651,2
F,H55068567(+) aaaaCA/GTAAGT 1 -- ut314Minor allele frequency- G:0.04EU EA WA 398
rs348833681,2
C,F55057633(+) TTCCTC/TCCTGG 1 P/S mis15Minor allele frequency- T:0.05NA EU EA WA 488
rs115448851,2
C,F55057677(+) AGCATT/AGATGG 1 I/I syn11Minor allele frequency- A:0.03NA 72
rs284212491,2
C,F55066266(+) CAAGGG/AGAACT 1 G/G syn11Minor allele frequency- A:0.06NA 50
rs118611381,2
C55067474(+) AATCCA/GGAAAG 1 P/P syn1 ese30--------
rs80561711,2
A,C,F,H55044946(+) ACATTC/GTTAAG 1 -- int18Minor allele frequency- G:0.34EU EA WA NA 630
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HapMap Linkage Disequilibrium images for OGFOD1 (up to first 250kb)

(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.)
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  --

(Possibly Related Articles in Doctor's Guide)
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  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
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5 PubMed articles for OGFOD1 gene:
(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, and/or H-InvDB)
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Entrez Gene: 55239 HGNC: 25585 AceView: FLJ10826 Ensembl:ENSG00000087263 euGenes: HUgn55239
ECgene: OGFOD1 H-InvDB: OGFOD1
(According to HUGE)
About This Section

HUGE: KIAA1612
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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  --
(Available from WIS Yeda, Salk, Tufts)
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  --
(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 OGFOD1:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



  Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
  Invitrogen Antibodies  Invitrogen Assays
  Invitrogen Clones  Invitrogen Q-PCR Products
  Invitrogen Human Recombinant Kinases  Invitrogen Custom Antibody and Peptide Service
  Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for OGFOD1-related products

 Millipore Custom Antibody & Bulk Services
 Millipore Preclinical / Clinical Development Services
 Millipore Immunoassay Services
 Millipore Target Screening & Profiling Services


 Predesigned and custom siRNAs for OGFOD1 Antibodies for OGFOD1
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for OGFOD1 Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Recombinant Proteins
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 Tagged/untagged cDNA clones
 Validated SYBR primer pairs
 Purified proteins from HEK293T cells
 Western blot validated antibodies
 shRNA in GFP-retroviral vector
 Search Tocris compounds for OGFOD1




 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for OGFOD1

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