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 Csa05g002150.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family bHLH
Protein Properties Length: 418aa    MW: 46666.4 Da    PI: 9.6681
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa05g002150.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.12.7e-12236282455
                     HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
             HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                      h   Er+RRd+ N+++  L++llP++      K +Ka+ L +A++Y++ Lq
  Csa05g002150.1 236 VHRLSERKRRDEFNKKMRALQDLLPNC-----YKDDKASLLDEAIKYMRTLQ 282
                     59999*********************8.....6******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000833.78E-13228286No hitNo description
Gene3DG3DSA:4.10.280.101.6E-16229292IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.7E-17230307IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.688232281IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000106.3E-10236282IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.7E-11238287IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009641Biological Processshade avoidance
GO:0010017Biological Processred or far-red light signaling pathway
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 418 aa     Download sequence    Send to blast
MEGKQLASSS SHQPNVISPS SGFKPKLNDQ DYMELVCENG KILAKTRRPK NNGSFQNQRT  60
QSLLDLYETE YYDGFKKNIK NLGDTQVVPV SEPPQPQQNK ENNEQINNKK KIKSSKTESE  120
RNVSKSHKRV ESSTLIDDSA KGPKNVEVTT APPDEQSVAV GRSTELYFAS SSKFSRGSSR  180
DQSLSSLKRK HGDIEEEEST YLISNNSDDE SDDEKTQVHV RTRKPVTKKR KRSTEVHRLS  240
ERKRRDEFNK KMRALQDLLP NCYKDDKASL LDEAIKYMRT LQLQVQMMSM GNGLIRPPTM  300
LPMGHYSHPM GLGMHMGAAA ATPVPQFLPM NVHGAGFPGM NNASSQMLSF LNHPTGLIPN  360
SPIFSPLENC SQQFVVPSCL PQTQATSLTQ FPKSASTSNL EDATQFRGSN GYYRSLN*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1227232KKRKRS
2229244RKRSTEVHRLSERKRR
3240245ERKRRD
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. Involved in responses to transient and long-term shade. Required for the light-mediated inhibition of hypocotyl elongation. Necessary for rapid light-induced expression of the photomorphogenesis- and circadian-related gene APRR9. Seems to play a role in multiple PHYB responses, such as flowering transition and petiole elongation. {ECO:0000269|PubMed:14668869, ECO:0000269|PubMed:16565297, ECO:0000269|PubMed:16891401}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa05g002150.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing peaks during the light period. Up-regulated by simulated shade in light-grown plants, in a phytochrome-dependent manner; low red/far-red ratio (R/FR) light, but repressed by a high R/FR light. Rapidly down-regulated after seedling deetiolation. {ECO:0000269|PubMed:14668869, ECO:0000269|PubMed:16565297, ECO:0000269|PubMed:16891401}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY9548400.0AY954840.1 Arabidopsis thaliana hypothetical protein (At2g46970) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019100995.10.0PREDICTED: transcription factor PIL1-like
SwissprotQ8L5W80.0PIL1_ARATH; Transcription factor PIL1
TrEMBLA0A178VNL30.0A0A178VNL3_ARATH; PIL1
TrEMBLR0HT070.0R0HT07_9BRAS; Uncharacterized protein
STRINGXP_010507949.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM139371725
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46970.10.0phytochrome interacting factor 3-like 1
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Luo Q, et al.
    COP1 and phyB Physically Interact with PIL1 to Regulate Its Stability and Photomorphogenic Development in Arabidopsis.
    Plant Cell, 2014. 26(6): p. 2441-2456
    [PMID:24951480]
  3. Kasulin L, et al.
    A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina.
    Mol. Ecol., 2017. 26(13): p. 3389-3404
    [PMID:28316114]