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 ORGLA01G0055600.1
Organism
Oryza glaberrima
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: 393aa    MW: 41864 Da    PI: 6.8449
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA01G0055600.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH24.54.8e-08125145526
                        --SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                         C++f++ G Ck+Gd C +aHg
  ORGLA01G0055600.1 125 ACPDFRK-GGCKRGDACEYAHG 145
                        7******.*************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003563.4E-5120146IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.103121147IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.5E-5124147IPR000571Zinc finger, CCCH-type
PfamPF006422.7E-6125145IPR000571Zinc finger, CCCH-type
SMARTSM0035612155178IPR000571Zinc finger, CCCH-type
PROSITE profilePS501036.258155179IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009867Biological Processjasmonic acid mediated signaling pathway
GO:0010150Biological Processleaf senescence
GO:0005634Cellular Componentnucleus
GO:0005886Cellular Componentplasma membrane
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 393 aa     Download sequence    Send to blast
MMMMGEGVSS VPPWSHLPVS GVDVLGGGGG GGGGGGDEMT PYLIAALRDY LPANDVGVGA  60
DDEEEAAAMA AAVDAYACDE FRMYEFKVRR CARGRSHDWT ECPFAHPGEK ARRRDPRKYH  120
YSGTACPDFR KGGCKRGDAC EYAHGVFECW LHPARYRTQP CKDGTACRRR VCFFAHTPDQ  180
LRVLPAQQSS PRSVASSPLA ESYDGSPLRR QAFESYLTKT IMSSSPTSTL MSPPKSPPSE  240
SPPLSPDGAA AIRRGSWPGV GSPVNDVLAS FRQLRLNKVK SSPSGGWSYP SSSAVYGSPK  300
AATGLYSLPT TPLASTATVT TASSFMPNLE PLDLGLIGDE EPVQRVESGR ALREKVFERL  360
SRDGAISGDA TAFAAAATAG VGLDVDWVSD LIN
Functional Description ? help Back to Top
Source Description
UniProtInvolved in leaf senescence delay. May repress jasmonic acid (JA) signaling role in promoting leaf senescence. May regulate panicle development and pollination/fertilization process. {ECO:0000269|PubMed:16778011}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA01G0055600.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1007700.0AK100770.1 Oryza sativa Japonica Group cDNA clone:J023119N23, full insert sequence.
GenBankAP0027460.0AP002746.2 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0671B11.
GenBankAP0149570.0AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025879384.10.0zinc finger CCCH domain-containing protein 2
SwissprotQ9FU270.0C3H2_ORYSJ; Zinc finger CCCH domain-containing protein 2
TrEMBLA0A0D3EKK20.0A0A0D3EKK2_9ORYZ; Uncharacterized protein
TrEMBLI1NL160.0I1NL16_ORYGL; Uncharacterized protein
STRINGORGLA01G0055600.10.0(Oryza glaberrima)
STRINGOBART01G05890.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP15783493
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G29190.11e-78C3H family protein
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]
  2. Mebel AM,Kislov VV,Hayashi M
    Prediction of product branching ratios in the C(3P)+C2H2-->l-C3H+H/c-C3H+H/C3+H2 reaction using ab initio coupled clusters calculations extrapolated to the complete basis set combined with Rice-Ramsperger-Kassel-Marcus and radiationless transition theories.
    J Chem Phys, 2007. 126(20): p. 204310
    [PMID:17552765]
  3. Miyazawa T,Shibata A,Nakagawa K,Tsuzuki T
    Anti-angiogenic function of tocotrienol.
    Asia Pac J Clin Nutr, 2008. 17 Suppl 1: p. 253-6
    [PMID:18296349]