PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_01960.1_g00007.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 335aa    MW: 36890.7 Da    PI: 4.9455
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01960.1_g00007.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH15.92.3e-051682081055
                              HHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH  10 rrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                              ++   +iN+++ +L++llP++     +K +  + L +A++Y+  Lq
  Rsa1.0_01960.1_g00007.1 168 KQKQTDINKKMRNLQDLLPNS-----QKDDNEALLDEAINYMTTLQ 208
                              333357**************9.....8***************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088810.391158207IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.106.2E-8163218IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000838.58E-5164212No hitNo description
SuperFamilySSF474592.62E-9166225IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010017Biological Processred or far-red light signaling pathway
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 335 aa     Download sequence    Send to blast
MVQGVPSNMD LIGRLRVVQS GGLTDQEYME LVFENGQILA KSQRSNGLSL QNQRTKSIVD  60
LYEAEYNEDF KKSVHIHDVD TSNKNLVDTQ TLKASSSKRM VVDYENRNDI VPPDEQSAVA  120
ERSVELGYES TDFTEDSEES TYQSSSLDDV RPQVPAITSK VLVKRRRKQK QTDINKKMRN  180
LQDLLPNSQK DDNEALLDEA INYMTTLQLQ VQMMAMGNRF VTPATVLPLG PHYSQMGLAT  240
GMPMGVPQLL PAPVLGAGLP LVGNSPDVLR VLNHPGLMPI QNSALFTPTE NYLPQSVPPP  300
SAALPKKIPN PTTSSNLNDA SQMGGNLSVK ESDKP
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1162169VKRRRKQK
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01960.1_g00007.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1728771e-118AC172877.1 Brassica rapa subsp. oleifera cultivar Inbred line 'Chiifu' clone KBrH042F19, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018493597.10.0PREDICTED: LOW QUALITY PROTEIN: transcription factor PIF6
SwissprotQ8L5W71e-131PIF6_ARATH; Transcription factor PIF6
TrEMBLA0A0D3DV120.0A0A0D3DV12_BRAOL; Uncharacterized protein
TrEMBLA0A3P6FJ660.0A0A3P6FJ66_BRAOL; Uncharacterized protein
STRINGBo02373s010.10.0(Brassica oleracea)
STRINGBo8g097630.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM134231425
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G62090.21e-109phytochrome interacting factor 3-like 2
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. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Adams E,Diaz C,Hong JP,Shin R
    14-3-3 proteins participate in light signaling through association with PHYTOCHROME INTERACTING FACTORs.
    Int J Mol Sci, 2014. 15(12): p. 22801-14
    [PMID:25501334]
  5. Galv√£o VC,Collani S,Horrer D,Schmid M
    Gibberellic acid signaling is required for ambient temperature-mediated induction of flowering in Arabidopsis thaliana.
    Plant J., 2015. 84(5): p. 949-62
    [PMID:26466761]
  6. Gomez EJ,Gerhardt K,Judd J,Tabor JJ,Suh J
    Light-Activated Nuclear Translocation of Adeno-Associated Virus Nanoparticles Using Phytochrome B for Enhanced, Tunable, and Spatially Programmable Gene Delivery.
    ACS Nano, 2016. 10(1): p. 225-37
    [PMID:26618393]
  7. Ochoa-Fernandez R, et al.
    Optogenetics in Plants: Red/Far-Red Light Control of Gene Expression.
    Methods Mol. Biol., 2016. 1408: p. 125-39
    [PMID:26965120]
  8. Gangl R,Tenhaken R
    Raffinose Family Oligosaccharides Act As Galactose Stores in Seeds and Are Required for Rapid Germination of Arabidopsis in the Dark.
    Front Plant Sci, 2016. 7: p. 1115
    [PMID:27507985]
  9. Paik I,Kathare PK,Kim JI,Huq E
    Expanding Roles of PIFs in Signal Integration from Multiple Processes.
    Mol Plant, 2017. 10(8): p. 1035-1046
    [PMID:28711729]