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 Bradi2g15670.1.p
Common NameBRADI_2g15670, LOC100842734
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family C3H
Protein Properties Length: 342aa    MW: 36477.4 Da    PI: 9.0267
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi2g15670.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH42.41.1e-13265290126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       +ktelC+ + +tG C yGd+C+FaHg
  Bradi2g15670.1.p 265 FKTELCNKWEETGVCLYGDQCQFAHG 290
                       79***********************8 PP
2zf-CCCH192.5e-06303328126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       ykte Cr  +  G C+yG rC+F H+
  Bradi2g15670.1.p 303 YKTEVCRMVLGRGLCPYGHRCHFRHS 328
                       9******999999**********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.106.6E-17261296IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.4E-10262296IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.709264292IPR000571Zinc finger, CCCH-type
SMARTSM003566.9E-8264291IPR000571Zinc finger, CCCH-type
PfamPF006424.4E-10265290IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.3E-12298328IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-8299329IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.202302330IPR000571Zinc finger, CCCH-type
SMARTSM003562.6E-4302329IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0061158Biological Process3'-UTR-mediated mRNA destabilization
GO:0005829Cellular Componentcytosol
GO:0003730Molecular FunctionmRNA 3'-UTR binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 342 aa     Download sequence    Send to blast
MAMQEALLHP AHADGVHSAV VLGSTKPLGF GDGRLSSPNG DGLFYGGYSP FTPSPRPSPR  60
TTLLSPWSPS SSSGSHVDNG DGKAATEHRL RLARLALQYQ DAANRYELCL SHLADAAREA  120
AALRLENHEL RVANNDLAGR FAMLGGNQSS AIALADELRR LQLGVAQTVP APPMPMPMPP  180
VTPAEKHAGL PKSISIRSSG YVKTTQTGGK HRAGKPMNSG SQQRVFVGVD GAKPAAELNG  240
GSGGGEKGEV VKGGLEFEVY SQGMFKTELC NKWEETGVCL YGDQCQFAHG IAELRPIIRH  300
PRYKTEVCRM VLGRGLCPYG HRCHFRHSIT PADAGHHLLR P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A1e-23265328467Butyrate response factor 2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi2g15670.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0985712e-90AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBankAC0988322e-90AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBankAK1063542e-90AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
GenBankAP0149612e-90AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBankCP0126132e-90CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014754275.10.0zinc finger CCCH domain-containing protein 39 isoform X1
SwissprotQ6L5G11e-121C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBLI1HG550.0I1HG55_BRADI; Uncharacterized protein
STRINGBRADI2G15670.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27753784
Representative plantOGRP20581636
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.11e-45C3H 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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]