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 OB08G12110.1
Organism
Oryza brachyantha
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 LSD
Protein Properties Length: 172aa    MW: 18569.2 Da    PI: 8.4985
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB08G12110.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD127.45.6e-094769123
       zf-LSD1  1 CggCrtlLsYPrGApsVRCalCd 23
                  C+gC tlL Y rGA+++RC++C+
  OB08G12110.1 47 CSGCPTLLFYNRGASNIRCPSCN 69
                  **********************8 PP
2zf-LSD125.91.6e-08110134125
       zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                   Cg+Crt+L+  +GA+ V+Ca C  V
  OB08G12110.1 110 CGQCRTTLMHSPGASTVQCATCRYV 134
                   **********************876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.1E-5434IPR005735Zinc finger, LSD1-type
PfamPF069432.7E-4730IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.9E-104572IPR005735Zinc finger, LSD1-type
PfamPF069434.4E-94769IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.6E-9107137IPR005735Zinc finger, LSD1-type
PfamPF069431.4E-9110134IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 172 aa     Download sequence    Send to blast
MQDQLICSGC RRVVQYRRGV AGVCCPGCNT LTAVNPSAAA NMSELICSGC PTLLFYNRGA  60
SNIRCPSCNR LNSTRSANSE LQTELKSSDP ELTINGFFEA AANQIAHLTC GQCRTTLMHS  120
PGASTVQCAT CRYVNHVRDA RPQTVLVENP KTLDDKGKLV SNVVVGVTSW KR
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapOB08G12110.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1204541e-101AK120454.1 Oryza sativa Japonica Group cDNA clone:J013104B05, full insert sequence.
GenBankCT8307651e-101CT830765.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA016M05, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006659091.11e-99PREDICTED: protein LOL4
SwissprotQ84UR02e-98LOL4_ORYSJ; Protein LOL4
TrEMBLJ3MQ321e-124J3MQ32_ORYBR; Uncharacterized protein
STRINGOB08G12110.11e-125(Oryza brachyantha)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP123332938
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.82e-38LSD 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]