PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Ciclev10028642m
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: 386aa    MW: 44572 Da    PI: 9.4646
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10028642mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B339.31.2e-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
  Ciclev10028642m  7 HKLILASTIRDKRLRIPENFVRNFKDD--LSAAATLIVPNGMVSRVGL--RRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAF--NVYIF 95
                     566678888999*********999877..8889***************..**********************************9999..88887 PP
2B352.11.2e-162973751799
                      E--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
               B3  17 vlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                      +lp  fae+h +g+  ++  ++l+ ++g++W v++ yr+++    +++GW eF  +n+L egD++vF++ + +ef l+v+vfr 
  Ciclev10028642m 297 YLPSCFAEKHlNGV--CG-FIKLQLSDGKQWPVRCLYRGGR--AKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRV 375
                      7999******8777..44.59999999********666665..5699*********************9988*********996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.3E-20396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.32E-20396IPR015300DNA-binding pseudobarrel domain
CDDcd100176.77E-15496No hitNo description
PROSITE profilePS5086311.209598IPR003340B3 DNA binding domain
SMARTSM010195.2E-13698IPR003340B3 DNA binding domain
PfamPF023621.3E-9795IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.107.4E-21242265IPR015300DNA-binding pseudobarrel domain
SMARTSM010194.5E-14291376IPR003340B3 DNA binding domain
SuperFamilySSF1019362.35E-18295376IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.4E-21297375IPR015300DNA-binding pseudobarrel domain
PfamPF023628.3E-15297375IPR003340B3 DNA binding domain
CDDcd100171.87E-16297374No hitNo description
PROSITE profilePS5086311.928298376IPR003340B3 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: 386 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 KGCIMVSCRI SITLHCFSVS RDNMLDVRCI YFLLLQYLPS  300
CFAEKHLNGV CGFIKLQLSD GKQWPVRCLY RGGRAKFSQG WYEFTVENRL GEGDVCVFEV  360
LRAREFVLKV TVFRVSESAG FMSRH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A7e-6821637715144B3 domain-containing transcription factor VRN1
4i1k_B7e-6821637715144B3 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-137VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLV4SBZ30.0V4SBZ3_9ROSI; Uncharacterized protein
STRINGXP_006423105.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112428103
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-139B3 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]