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 Gorai.003G020000.1
Common NameB456_003G020000, LOC105787585
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family B3
Protein Properties Length: 576aa    MW: 65131 Da    PI: 9.0011
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G020000.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B350.73.2e-1623113299
                         EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
                  B3   2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                         fk+    d+ ++g l +p+kf+++ g++  +    +l  +sg++W+v+l  +k+ g++++++GW eF +   L+ g  +vF++dg+s+f  
  Gorai.003G020000.1  23 FKII-LQDTIQNGKLGVPRKFVKNQGNSMSS--PAMLSVPSGEVWKVEL--TKCNGKIWFENGWLEFSNHYSLDFGHLLVFRYDGNSNF-- 106
                         4544.468899999********666655444..69999***********..**********************************9999.. PP

                         EEEEE-S CS
                  B3  93 vvkvfrk 99 
                         +v +f++
  Gorai.003G020000.1 107 HVVIFDR 113
                         **99997 PP
2B356.45.3e-18240329287
                         EEE-..-HHHHT....T-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE.....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   2 fkvltpsdvlks....grlvlpkkfaeehggkkeesktltledesgrsWevkliy...rkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         + v+ ps+v+ s     rl +p +f+++h +k+ +s  +tl ++sg++W v+++     kk+ +y+lt GW  Fv++n++++gD + F+l+
  Gorai.003G020000.1 240 LVVMQPSYVGLShskgYRLAIPANFVRKHLMKELCS--ITLCNSSGKTWIVTFKNnqiGKKQTSYLLT-GWGTFVHDNNVRVGDACAFELI 327
                         5566666666554555899**********8887786..9999***********776645555557777.********************99 PP

                         SS CS
                  B3  86 gr 87 
                         ++
  Gorai.003G020000.1 328 NS 329
                         75 PP
3B355.97.7e-18400493499
                         E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE.....EEETTE..EEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
                  B3   4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliy...rkksgr..yvltkGWkeFvkangLkegDfvvFkldgrse 89 
                         vl ps++   +r+ +p  fa+++  k   +k+ +l  ++g+sW v ++    + +  +   ++++GW++F ++n+L++gD++vF+l+   e
  Gorai.003G020000.1 400 VLQPSYS---RRMNIPVIFARKYLAK--MHKEAILLLSNGKSWPVIYCQhkiEST--GanAIFGSGWRRFSHDNKLEVGDSCVFELIMAAE 483
                         4433333...4678*********545..3457899999*********76543333..3569**************************8888 PP

                         E..EEEEE-S CS
                  B3  90 felvvkvfrk 99 
                         ++++v++++k
  Gorai.003G020000.1 484 TSMKVTIYKK 493
                         8899999886 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.3E-2217114IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-2218113IPR015300DNA-binding pseudobarrel domain
CDDcd100173.19E-1720112No hitNo description
PROSITE profilePS5086313.28121114IPR003340B3 DNA binding domain
SMARTSM010194.2E-1722114IPR003340B3 DNA binding domain
PfamPF023622.3E-1323113IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.104.9E-23231339IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.19E-23234341IPR015300DNA-binding pseudobarrel domain
CDDcd100173.10E-20237339No hitNo description
SMARTSM010192.7E-14239342IPR003340B3 DNA binding domain
PROSITE profilePS5086313.507243342IPR003340B3 DNA binding domain
PfamPF023622.8E-15251331IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.104.8E-24388494IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.73E-22390493IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.916394494IPR003340B3 DNA binding domain
CDDcd100172.09E-20395492No hitNo description
SMARTSM010198.2E-17396494IPR003340B3 DNA binding domain
PfamPF023622.6E-16400493IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 576 aa     Download sequence    Send to blast
MASSSYRQGN DHLKFISNSP HFFKIILQDT IQNGKLGVPR KFVKNQGNSM SSPAMLSVPS  60
GEVWKVELTK CNGKIWFENG WLEFSNHYSL DFGHLLVFRY DGNSNFHVVI FDRTATEILY  120
PYTRYNHIHR RSNIDKSKDD DSTPNLEDIS TSRKLREKSQ MPCPQPCKMM HSTNSAIKTE  180
IECDGKSEFL AQQIRYEGCP ARNGDKSTRH RVIQQLKPHE KDDALERASK TFKSENPFFL  240
VVMQPSYVGL SHSKGYRLAI PANFVRKHLM KELCSITLCN SSGKTWIVTF KNNQIGKKQT  300
SYLLTGWGTF VHDNNVRVGD ACAFELINSI EISFNVVIYQ GPHTKCYQSL SSTDIIRPMK  360
RKDQSYASPS GSETLTALEK AKAFQVASAF KSEYPFFISV LQPSYSRRMN IPVIFARKYL  420
AKMHKEAILL LSNGKSWPVI YCQHKIESTG ANAIFGSGWR RFSHDNKLEV GDSCVFELIM  480
AAETSMKVTI YKKQAVKDSS LADNSREKQV ELHESSVIGT KSALMNEKED TSNLLLDYNC  540
DASGETLDDI LISNLSSPGK ALEEASQSYQ SFTRE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A3e-1536649217141B3 domain-containing transcription factor VRN1
4i1k_B3e-1536649217141B3 domain-containing transcription factor VRN1
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5782021e-125JX578202.1 Gossypium hirsutum clone NBRI_GE10175 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012469504.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
TrEMBLA0A0D2MI580.0A0A0D2MI58_GOSRA; Uncharacterized protein
STRINGGorai.003G020000.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM14219723
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.16e-41B3 family protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]