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.013G039700.1
Common NameB456_013G039700, LOC105783885
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: 415aa    MW: 47152 Da    PI: 8.5189
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G039700.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B347.92.5e-15531271797
                         E--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
                  B3  17 vlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97 
                          +p+kf++++g++   s   tl+ +sgr W v+l  rk  +r++l  GW  Fv+   +++g f+vF++dg+s f  +v+++
  Gorai.013G039700.1  53 KIPNKFVKKFGHE--LSSIATLNVPSGRLWLVEL--RKENKRVWLDCGWTVFVEYYSICSGYFLVFRYDGNSHF--NVHIY 127
                         59********965..78899**************..************************************99..66554 PP
2B362.28.4e-20313403498
                         E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                  B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                         +l ps+v k   l +p+ fa ++ +g+      +tl+ ++g++W v++iy ++s    ++kGW eFv +n+L+egD++vF+l++++e  l+
  Gorai.013G039700.1 313 ILRPSYVYKGIFLHIPRCFALRYlNGVDG---IVTLQVSEGKKWPVRCIYGQSS--WKFSKGWAEFVLDNNLDEGDVCVFELISTKEIVLK 398
                         6789*******************866643...5***************777776..4599***********************99999999 PP

                         EEEE- CS
                  B3  94 vkvfr 98 
                         v++fr
  Gorai.013G039700.1 399 VTIFR 403
                         99998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.8E-2031130IPR015300DNA-binding pseudobarrel domain
CDDcd100174.69E-1339128No hitNo description
SMARTSM010191.1E-841130IPR003340B3 DNA binding domain
SuperFamilySSF1019362.35E-1849130IPR015300DNA-binding pseudobarrel domain
PfamPF023623.8E-1253127IPR003340B3 DNA binding domain
PROSITE profilePS5086311.51954130IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.7E-25302403IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.73E-25303403IPR015300DNA-binding pseudobarrel domain
CDDcd100179.97E-23308403No hitNo description
SMARTSM010191.2E-18310405IPR003340B3 DNA binding domain
PROSITE profilePS5086314.142310405IPR003340B3 DNA binding domain
PfamPF023627.1E-19313403IPR003340B3 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: 415 aa     Download sequence    Send to blast
MSQPTGPSLP HKKSCIFYKL MVASILHDKK LLQCSKQLKT CCVVIKLNDV SKKIPNKFVK  60
KFGHELSSIA TLNVPSGRLW LVELRKENKR VWLDCGWTVF VEYYSICSGY FLVFRYDGNS  120
HFNVHIYNLN ASEINYQSNG LNDSREPGHD KHLKDVEDGA FAQILRSQPT SSSSCFLIDD  180
DFDECVDHDR KKRKNSTFLD QKNNVDDLRA TVQSTRDKGI QFNGVELTSA ADEGGLNFLN  240
GTQKNTKEIK QEIEPDIDEY KSLGKFIVKE ELPAMNSPRS DHKKRRDATA EGKQIALRAA  300
AMFKPDNPFC RVILRPSYVY KGIFLHIPRC FALRYLNGVD GIVTLQVSEG KKWPVRCIYG  360
QSSWKFSKGW AEFVLDNNLD EGDVCVFELI STKEIVLKVT IFRVLEDGVA VNQL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-4328040619144B3 domain-containing transcription factor VRN1
4i1k_B2e-4328040619144B3 domain-containing transcription factor VRN1
Search in ModeBase
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_012465038.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
TrEMBLA0A0D2VL090.0A0A0D2VL09_GOSRA; Uncharacterized protein
STRINGGorai.013G039700.10.0(Gossypium raimondii)
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
AT1G49480.12e-44related to vernalization1 1
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]