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 LOC_Os07g48200.1
Common NameLOC4344293, OJ1205_F02.12, Os07g0679700
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family B3
Protein Properties Length: 950aa    MW: 104070 Da    PI: 6.9039
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os07g48200.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.56e-19363462198
                       EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                       f+kvl+ sd+++ grlvlpk +ae++   ++++e++ lt++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  +
  LOC_Os07g48200.1 363 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGRPLTIQDAKGKEWHFQFRFwpNNNSRMYVLE-GVTPCIQSLQLQAGDTVTFSRIE-PG 453
                       99**************************555567778***************9989999999***9.********************887.77 PP

                       E..EEEEE- CS
                B3  90 felvvkvfr 98 
                       ++lv+++++
  LOC_Os07g48200.1 454 GKLVMGFRK 462
                       777877776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.6E-31355472IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.01E-21360463IPR015300DNA-binding pseudobarrel domain
CDDcd100174.29E-24361462No hitNo description
SMARTSM010194.0E-22363463IPR003340B3 DNA binding domain
PROSITE profilePS5086311.547363464IPR003340B3 DNA binding domain
PfamPF023624.6E-16363462IPR003340B3 DNA binding domain
PROSITE profilePS5105014.706623673IPR011124Zinc finger, CW-type
PfamPF074961.6E-11628670IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009047anatomystem
PO:0007010developmental stagewhole plant fruit ripening stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 950 aa     Download sequence    Send to blast
MAGMAAAAAA LVAAKRCMNA ACGAPAPSPA GGEWRKGWPL RSGGFAVLCD KCGLAYEQLV  60
FCDIFHQKES GWRDCSFCGK RLHCGCIASK NSFDLLDSGG VQCVTCIKNS AVQSVPSPVV  120
PKLFSSQNNQ RLFGKSDDLL SGRPLETSSL MVDARNDDLT IIAKNNLPFM VKNVEAGQSS  180
NILRQKELEN GARQIKWELP TLSIGDMGRI PFLTRSQSAL ESRRDENKDP TTESTTSESL  240
SEACLNMSLG IASNGNKLEA TSTVERPMLS PTTGFPEGRE LTTALSPFQH AQRARHFLTR  300
PPRVGEGAVF DPTKDMLPHL RVARPPAEGR GRNQLLPRYW PRITDQELQQ ISGDSNSTIV  360
PLFEKVLSAS DAGRIGRLVL PKACAEAYFP PISQPEGRPL TIQDAKGKEW HFQFRFWPNN  420
NSRMYVLEGV TPCIQSLQLQ AGDTVTFSRI EPGGKLVMGF RKATNTVSLP DSQISAIANG  480
SILGDTLFSS TNENLAIVSG YSGFLQSIKG AADLHTSSIY DHHVNSADGD VSWLKTDKFG  540
SRPDEGSLQF LKRGRNIGSK SRRLSMDAEE AWELKLYWDE VQELLRPAPT AKPTVVMIED  600
YEIEEYDEPP VFAKRSIFTI RSTGEQDQWI QCDDCSKWRR LPLNVIVASK WTCADNTIDS  660
KSCSCSAPEE LTPKELHIVL QQYEDMRRRR NSFGFKQNIP EMDAVSLDAF ATAAVYGDVG  720
NQGSPSVATT TKHPRHRPGC TCIVCIQPPS GKGPKHNPAC TCNVCMTVRR RFKTLMMRKK  780
QRQSEREEAE ASKKIAWMNR DEPEGSSLSR SPQTVDTTRD GDVTMFDKVD INKGHIDLNF  840
HPTAVRDEER HGGQPRVSMV SLLEVANRPL ENYMKQNGLT SLAGEQGSSS TCTGAATVPQ  900
PALVESEERT SNNDGGRVAT AEQPESMAVD EAGDNQPDKA AGDSAAALA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5yzy_C1e-663414651125B3 domain-containing transcription repressor VAL1
5yzz_C1e-663414651125B3 domain-containing transcription repressor VAL1
5z00_C1e-663414651125B3 domain-containing transcription repressor VAL1
5z00_G1e-663414651125B3 domain-containing transcription repressor VAL1
5z00_K1e-663414651125B3 domain-containing transcription repressor VAL1
5z00_M1e-663414651125B3 domain-containing transcription repressor VAL1
6j9a_A1e-663414652126B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1768779RRRFKTLMMRKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.209630.0callus| flower| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ6Z3U3
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os07g48200.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs07g48200
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1013560.0AK101356.1 Oryza sativa Japonica Group cDNA clone:J033035A04, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015646777.10.0B3 domain-containing protein Os07g0679700 isoform X1
SwissprotQ6Z3U30.0Y7797_ORYSJ; B3 domain-containing protein Os07g0679700
TrEMBLA0A0D3GUZ60.0A0A0D3GUZ6_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0QCT20.0A0A0E0QCT2_ORYRU; Uncharacterized protein
STRINGORUFI07G27410.10.0(Oryza rufipogon)
STRINGOS07T0679700-010.0(Oryza sativa)
STRINGOBART07G26400.20.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP65193748
Representative plantOGRP12361446
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.11e-180HSI2-like 1
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]