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 ONIVA07G01070.1
Organism
Oryza nivara
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 bHLH
Protein Properties Length: 512aa    MW: 55121.7 Da    PI: 6.4458
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA07G01070.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH56.16.6e-18327373455
                      HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
              HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                       hn  ErrRRdriN+++  L+el+P++      K +Ka+iL +A+eY+ksLq
  ONIVA07G01070.1 327 VHNLSERRRRDRINEKLRALQELVPHC-----NKTDKASILDEAIEYLKSLQ 373
                      6*************************8.....6******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000833.15E-17319377No hitNo description
SuperFamilySSF474592.09E-21321388IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.768323372IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.0E-21327381IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.9E-15327373IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.3E-18329378IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 512 aa     Download sequence    Send to blast
MVRDVPKQAG QKKKIRRFVN PSSPPPYKNA TDTSPSFFLR FNFPDEIEPN YNYPSISSTR  60
HLTLLPRHSH FLSTSKRSKK NEVSVTCRLS KNCGAMDAGA TARSSSSSAM MMNQKKPLLS  120
DGELVELLWQ DGGVVAHAQT RHRSSDVLAR SGVTGEEETA SAWFADGGGA GGGGDDALGV  180
GMGRDIYSQL WHSFANVDGH AAGALALATP TPTPRAAARS DDVSSRLDEA GLSICGSNAV  240
VAPALPADDD DDIDAAAPRE EEEEEEGPGA ARAAGASSSG GSGSGSGSYP LFKRGREELV  300
DSLSEVADET RPSKRPAAKR RTRAAEVHNL SERRRRDRIN EKLRALQELV PHCNKTDKAS  360
ILDEAIEYLK SLQMQVQIMW MTTGIVPMMF PGTHQLMPPM GMGLNTACMP GAQAQGLNQM  420
QRTTYYMNNS LPNQMPQIPS PAMNAPSVPD DMQNDNRIRG PRNPFLHCND TLTATAQVPG  480
LFTYGSQIAE QNEIQELLSG AVIPSSSDGT IK
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11016QKKKIRR
2318335KRRTRAAEVHNLSERRRR
3331336ERRRRD
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act as negative regulator of phyB-dependent light signal transduction (PubMed:17485859). Transcription activator that acts as positive regulator of internode elongation. May function via regulation of cell wall-related genes. May play a role in a drought-associated growth-restriction mechanism in response to drought stress (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by light in dark-grown etiolated seedlings (PubMed:17485859). Circadian oscillation under 12 h light/12 h dark cycle conditions, with peaks in the middle of the light period (PubMed:17485859, PubMed:22984180). Down-regulated by cold and drought stresses (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN4002760.0JN400276.1 Oryza sativa Japonica Group rice phytochrome-interacting factor 4 (PIF4) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015648043.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X1
RefseqXP_015648044.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X1
RefseqXP_015648045.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X1
SwissprotQ10CH51e-91PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLA0A0E0HWE80.0A0A0E0HWE8_ORYNI; Uncharacterized protein
STRINGONIVA07G01070.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP31743482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G09530.22e-27phytochrome interacting factor 3
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. Nakamura Y,Kato T,Yamashino T,Murakami M,Mizuno T
    Characterization of a set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa.
    Biosci. Biotechnol. Biochem., 2007. 71(5): p. 1183-91
    [PMID:17485859]
  3. Zhao XL,Shi ZY,Peng LT,Shen GZ,Zhang JL
    An atypical HLH protein OsLF in rice regulates flowering time and interacts with OsPIL13 and OsPIL15.
    N Biotechnol, 2011. 28(6): p. 788-97
    [PMID:21549224]
  4. Todaka D, et al.
    Rice phytochrome-interacting factor-like protein OsPIL1 functions as a key regulator of internode elongation and induces a morphological response to drought stress.
    Proc. Natl. Acad. Sci. U.S.A., 2012. 109(39): p. 15947-52
    [PMID:22984180]