PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID OBART06G24650.1
Organism
Oryza barthii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family C3H
Protein Properties Length: 594aa    MW: 65809.3 Da    PI: 6.8884
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART06G24650.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.32e-064565526
                     --SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                     +C+ +   G+C+ G++C++ H+
  OBART06G24650.1 45 ECNMYKM-GFCPNGPNCRYKHV 65
                     6666666.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.011440IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.5961439IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.0654067IPR000571Zinc finger, CCCH-type
SMARTSM003560.00314266IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.4E-44664IPR000571Zinc finger, CCCH-type
PROSITE profilePS5088257.421189324IPR007275YTH domain
PfamPF041463.9E-44189323IPR007275YTH domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006979Biological Processresponse to oxidative stress
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:1900363Biological Processregulation of mRNA polyadenylation
GO:2000031Biological Processregulation of salicylic acid mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003723Molecular FunctionRNA binding
GO:0004521Molecular Functionendoribonuclease activity
GO:0005516Molecular Functioncalmodulin binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 594 aa     Download sequence    Send to blast
MKGEACGFLH QFDKARMPVC RFFRDFGECR EPDCAYKHSY DDVKECNMYK MGFCPNGPNC  60
RYKHVKLPGP PPPVEEVLQK ILQIRSFNKF NQHRHNNYNQ QGERPQHPQG SGLPNQNSID  120
NTTTTTAQPA VGQQAQTTNQ QPPQQQQQQQ QQQQQQQQKP NTNDQVQSVP NGSSNQATRI  180
ATPLPQGPSR YFIVKSCNRE NLEISVQQGI WATQRSNEAK LNEAFESIEN VILIFSINRT  240
RNFQGCAKMT SRIGGYIGGG NWKSAHGTAH YGRNFSIQWL KLCELSFQKT HHLRNPYNDN  300
LPVKISRDCQ ELEPFIGEQL ASLLYLEPDG ELTAILIAAE AKKEEEKAKG VSADEAADNQ  360
DIVLFDDNEE EEEEESEEEE EGNGQESQGR GRGRGMMWPP QMPMLRGVGP MMGGRGFPPN  420
MIGDGFGFGG GFGMPDPFGV PRGFPPFGPR FPGDFARGGP MPGMVFPGRP PQPGGMFPMG  480
LEMMMGPGRG PLMGGLGMGG PGRPNRPVGM APFMPPPPPP NNRGTKREQR RPGGERGDRY  540
ETTSDQGSRG HDATGNSGAE GARSQSGDRY GRSALRDDDS ESDEEAAPRR SRKR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-104174352218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-104174352218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-104174352218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-104174352218030-kDa cleavage and polyadenylation specificity factor 30
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0037280.0AP003728.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0710B08.
GenBankAP0049890.0AP004989.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, BAC clone:B1153E06.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644405.10.0zinc finger CCCH domain-containing protein 45
SwissprotQ0DA500.0C3H45_ORYSJ; Zinc finger CCCH domain-containing protein 45
TrEMBLA0A0D3GJW10.0A0A0D3GJW1_9ORYZ; Uncharacterized protein
STRINGOBART06G24650.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428