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 Ciclev10028732m
Common NameCICLE_v10028642mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family B3
Protein Properties Length: 355aa    MW: 40943.7 Da    PI: 9.6554
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10028732mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B339.51e-12795397
                     EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
               B3  3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97
                      +l+ +++ + +rl++p +f+++++ +   s   tl  ++g + +v l  r+ ++++++ +GW+eF +   ++ g f+vF+++g+s f  +v +f
  Ciclev10028732m  7 HKLILASTIRDKRLRIPENFVRNFKDD--LSAAATLIVPNGMVSRVGL--RRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAF--NVYIF 95
                     566678888999*********999877..8889***************..**********************************9999..88887 PP
2B362.28.4e-20253344499
                      E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
               B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96 
                      vl ps+  k ++++lp  fae+h +g+  ++  ++l+ ++g++W v++ yr+++    +++GW eF  +n+L egD++vF++ + +ef l+v+v
  Ciclev10028732m 253 VLRPSYLYKGCIMYLPSCFAEKHlNGV--CG-FIKLQLSDGKQWPVRCLYRGGR--AKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTV 341
                      7889*******************8777..44.59999999********666665..5699*********************9988********* PP

                      E-S CS
               B3  97 frk 99 
                      fr 
  Ciclev10028732m 342 FRV 344
                      996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.0E-20396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.73E-20396IPR015300DNA-binding pseudobarrel domain
CDDcd100173.72E-15496No hitNo description
PROSITE profilePS5086311.209598IPR003340B3 DNA binding domain
SMARTSM010195.2E-13698IPR003340B3 DNA binding domain
PfamPF023621.2E-9795IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.108.7E-24242344IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.01E-24245346IPR015300DNA-binding pseudobarrel domain
CDDcd100177.54E-22248343No hitNo description
PROSITE profilePS5086313.126250345IPR003340B3 DNA binding domain
SMARTSM010193.4E-21250345IPR003340B3 DNA binding domain
PfamPF023621.2E-17253344IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009909Biological Processregulation of flower development
GO:0010048Biological Processvernalization response
GO:0005654Cellular Componentnucleoplasm
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 355 aa     Download sequence    Send to blast
MPRPYFHKLI LASTIRDKRL RIPENFVRNF KDDLSAAATL IVPNGMVSRV GLRRLDNKVW  60
FYDGWQEFME RYFIRIGYFL VFRYEGNSAF NVYIFNLPSS EINYQPNALS NFEVPNHSKQ  120
YHIFAEMEDD DSEHVDQPTV NKTFNPPSFQ NLLNSSKLSN SINGAGEANL QRLKVKLYSQ  180
DGETPKLKKP GRKRKIDPNV QASSAQEVHD GEMQFRFYES ASARKRTVTA EERERAINAA  240
KAFEPSNPFC RVVLRPSYLY KGCIMYLPSC FAEKHLNGVC GFIKLQLSDG KQWPVRCLYR  300
GGRAKFSQGW YEFTVENRLG EGDVCVFEVL RAREFVLKVT VFRVSESAGF MSRH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-7421634615144B3 domain-containing transcription factor VRN1
4i1k_B2e-7421634615144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots and at lower levels in aerial parts. {ECO:0000269|PubMed:12114624}.
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269|PubMed:12114624}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006423107.10.0B3 domain-containing transcription factor VRN1 isoform X1
RefseqXP_006479395.10.0B3 domain-containing transcription factor VRN1
SwissprotQ8L3W11e-143VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A067EE910.0A0A067EE91_CITSI; Uncharacterized protein
TrEMBLV4S7D70.0V4S7D7_9ROSI; Uncharacterized protein
STRINGXP_006479395.10.0(Citrus sinensis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-145B3 family protein
Publications ? help Back to Top
  1. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  2. Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS
    Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana.
    Plant Cell Rep., 2018. 37(6): p. 901-912
    [PMID:29541883]