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_Os12g40080.1
Common NameOs12g0591400
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: 491aa    MW: 55899.8 Da    PI: 10.1318
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g40080.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B362.66.6e-2027114197
                       EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                       f+kv+     +k+g +++p kfa+++gg+   s t++le+++g+++ev++   k  +  vl++GW++F++a +L+ gD++vF ++g+s f  +
  LOC_Os12g40080.1  27 FIKVM--ITDFKNG-VTIPAKFARNFGGQM--SGTVKLETRNGKTYEVQV--AKELNNLVLRSGWERFASAYELEKGDILVFIYSGNSHF--K 110
                       67777..6678887.********9999994..559***************..**********************************9999..6 PP

                       EEEE CS
                B3  94 vkvf 97 
                       v ++
  LOC_Os12g40080.1 111 VWIY 114
                       6655 PP
2B3437.9e-14241324693
                       ..-HHHHTT-EE--HHH.HTT---..--SEEEEEE.TTS-EEEEEE..EEETTE.EEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                B3   6 tpsdvlksgrlvlpkkfaeehggkkeesktltled.esgrsWevkliyrkksgr.yvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                       + + + + g+l ++k++a ++ ++k+e  t++l +  ++ +W++ l  +   +  y l++GW +F + n+L+egD++vF+ ++++++  v
  LOC_Os12g40080.1 241 MDKASATDGLLAISKDYAVSYLLDKNE--TIKLCHsGRSMTWDISL--DIDTDDqYALSTGWLDFIRNNHLQEGDICVFEASKNKRG--V 324
                       5566778899***********888767..56665536678899999..4444434*************************8887666..3 PP
3B3421.7e-1340148713100
                       TT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE..EEEEE-SS CS
                B3  13 sgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefelvvkvfrks 100
                       s+ ++++ k+a+++     e++ +++   + ++s++ k  ++ + + + l++GW +Fv++n++k gD+++F+l+++ ++  ++v+++rks
  LOC_Os12g40080.1 401 SRYMCFSAKYAAKYlP--REKN-KIMRLRLPNKSYKYKAVFKINNKVHKLGGGWGKFVDDNKIKLGDICLFQLMKNkKKLMMMVHIIRKS 487
                       5667888899999942..3344.455555566777777777999999***************************999*********9985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.26E-2321119IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.7E-2323119IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.46524117IPR003340B3 DNA binding domain
CDDcd100173.48E-2125115No hitNo description
SMARTSM010192.6E-1627117IPR003340B3 DNA binding domain
PfamPF023626.6E-1827113IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.4E-17230328IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.73E-18230329IPR015300DNA-binding pseudobarrel domain
CDDcd100173.01E-11235316No hitNo description
PROSITE profilePS5086312.379236331IPR003340B3 DNA binding domain
SMARTSM010195.5E-6237334IPR003340B3 DNA binding domain
PfamPF023627.8E-11242323IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.108.0E-17380487IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.06E-19381487IPR015300DNA-binding pseudobarrel domain
CDDcd100174.06E-14386468No hitNo description
SMARTSM010196.8E-6388487IPR003340B3 DNA binding domain
PROSITE profilePS508639.798389487IPR003340B3 DNA binding domain
PfamPF023625.2E-12400486IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 491 aa     Download sequence    Send to blast
MEKSHRVCKN CVANHYWLHM DNHGKSFIKV MITDFKNGVT IPAKFARNFG GQMSGTVKLE  60
TRNGKTYEVQ VAKELNNLVL RSGWERFASA YELEKGDILV FIYSGNSHFK VWIYDPSACE  120
KGLPCIITEQ LPRVQQRSIS HNNHTQLKRN AKSAKLYVDS SGHSKETSEI NPANSPSWKP  180
TERVPSSEEL DEPVDLANVQ KATKSFYSLP RMCNMTSAQK AEVDALEKRI KPQIPFYITV  240
MDKASATDGL LAISKDYAVS YLLDKNETIK LCHSGRSMTW DISLDIDTDD QYALSTGWLD  300
FIRNNHLQEG DICVFEASKN KRGVALIFHP LKQSHHPKPP GCVPSTKFPR HGVSKPNYIV  360
SRFTTLSGQL KIKVEAKVQA IQSEIPIFVA VMRESFIRGR SRYMCFSAKY AAKYLPREKN  420
KIMRLRLPNK SYKYKAVFKI NNKVHKLGGG WGKFVDDNKI KLGDICLFQL MKNKKKLMMM  480
VHIIRKSEFC *
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ2QMT6
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g40080.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g40080
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL9548290.0AL954829.6 Oryza sativa chromosome 12, . BAC OSJNBa0044E20 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBankAP0149680.0AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025878051.10.0B3 domain-containing protein LOC_Os12g40080
SwissprotQ2QMT60.0Y1208_ORYSJ; B3 domain-containing protein LOC_Os12g40080
TrEMBLI1R7J60.0I1R7J6_ORYGL; Uncharacterized protein
STRINGORGLA12G0150200.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP56234179
Representative plantOGRP5872421
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G33280.12e-22B3 family protein
Publications ? help Back to Top
  1. Rice Chromosomes 11 and 12 Sequencing Consortia
    The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications.
    BMC Biol., 2005. 3: p. 20
    [PMID:16188032]