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 OBART04G13490.1
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: 217aa    MW: 24528.6 Da    PI: 7.7014
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART04G13490.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.96.1e-07147170126
                      --S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                      y+ e Cr++++   C++ ++C+FaH+
  OBART04G13490.1 147 YGVEVCRDYLK-NMCNR-ESCRFAHP 170
                      899********.*****.*******9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.836330IPR000571Zinc finger, CCCH-type
SMARTSM003560.21329IPR000571Zinc finger, CCCH-type
PfamPF1460821528No hitNo description
PROSITE profilePS5010313.0944573IPR000571Zinc finger, CCCH-type
SMARTSM003560.0194672IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.6E-45071IPR000571Zinc finger, CCCH-type
PfamPF146083.55170No hitNo description
SMARTSM003560.7376100IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.29180101IPR000571Zinc finger, CCCH-type
PfamPF146081.28198No hitNo description
Gene3DG3DSA:4.10.1000.103.1E-4145169IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.338146172IPR000571Zinc finger, CCCH-type
SMARTSM003564.7E-4146171IPR000571Zinc finger, CCCH-type
PfamPF146080.0068152170No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 217 aa     Download sequence    Send to blast
MADSKVTACA DSLRNNCFRG RTCRYYHPPP HIQESLLRSI GVEDPKVKMV CRDFTRGRCS  60
RSANECRFLH HSPLEDCAIV CQDFLRGRCD RKSCRYSHVM AHPMPPPMRD IPMQYPDMVY  120
MPPPAPLGVP MMMPPPSAPA AFSGNNYGVE VCRDYLKNMC NRESCRFAHP DLNNEFAVIL  180
SEENAIDLPV AFTIHLQAQI LLDKCPALLP LLPLCCC
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0606340.0AK060634.1 Oryza sativa Japonica Group cDNA clone:001-027-B10, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636418.11e-125zinc finger CCCH domain-containing protein 28 isoform X2
SwissprotQ0JD071e-111C3H28_ORYSJ; Zinc finger CCCH domain-containing protein 28
TrEMBLA0A0D3FW551e-157A0A0D3FW55_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0H1641e-156A0A0E0H164_ORYNI; Uncharacterized protein
STRINGONIVA04G11660.11e-157(Oryza nivara)
STRINGOBART04G13490.11e-158(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP109041922
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]