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 OMERI06G24870.1
Organism
Oryza meridionalis
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: 664aa    MW: 72242.1 Da    PI: 6.7427
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI06G24870.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.12.3e-06120140526
                      --SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                      +C+ +   G+C+ G++C++ H+
  OMERI06G24870.1 120 ECNMYKM-GFCPNGPNCRYKHV 140
                      6666666.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003563.6E-56187IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.9576188IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.3E-56288IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.89E-66286IPR000571Zinc finger, CCCH-type
SMARTSM003560.0189115IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.59689114IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.065115142IPR000571Zinc finger, CCCH-type
SMARTSM003560.0031117141IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.8E-4121139IPR000571Zinc finger, CCCH-type
PROSITE profilePS5088257.421259394IPR007275YTH domain
PfamPF041464.8E-44259393IPR007275YTH 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: 664 aa     Download sequence    Send to blast
MDDGDLSFDF EGGLDQAPAG GGGPAPHSSD PGGVGVGGGG GGGGGGPGDG GGHGRGRGRG  60
SYRQTVCRHW LRGLCMKGEA CGFLHQFDKA RMPVCRFFRD FGECREPDCA YKHSYDDVKE  120
CNMYKMGFCP NGPNCRYKHV KLPGPPPPVE EVLQKILQIR SFNKFNQHRH NNYNQQGERP  180
QHPQGSGLPN QNSTDNTTTT TAQPAVGQQA QTTNQQPPQQ QQQQQQQQKP NTNDQVQSVP  240
NGSSNQATRI ATPLPQGPSR YFIVKSCNRE NLEISVQQGI WATQRSNEAK LNEAFESIEN  300
VILIFSINRT RNFQGCAKMT SRIGGYIGGG NWKSAHGTAH YGRNFSIQWL KLCELSFQKT  360
HHLRNPYNDN LPVKISRDCQ ELEPFIGEQL ASLLYLEPDS ELTAILIAAE AKKEEEKAKG  420
VSADEAADNQ DIVLFDDNEE EEEEESEEEE EGNGQESQGR GRGRGMMWPP QMPMLRGVGP  480
MMGGRGFPPN MIGDGFGFGG GFGMPDPFGV PRGFPPFGPR FPGDFARGGP MPGMVFPGRP  540
PQPGGMFPMG LEIMMGPGRG PLMGGLGMGG PGRPNRPVGM APFMPPPPPP NNRGTKREQR  600
RPGGERGDRY ETTSDQGSRG HDATGNSGAE GARSQSGDRY GRSALRDDDS ESDEEAAPRR  660
SRKR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-103244422218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-103244422218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-103244422218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-103244422218030-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
TrEMBLA0A0E0E5B00.0A0A0E0E5B0_9ORYZ; Uncharacterized protein
STRINGOMERI06G23190.10.0(Oryza meridionalis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428