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 GSBRNA2T00111579001
Common NameGSBRNA2T00111579001, LOC106353056
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family B3
Protein Properties Length: 237aa    MW: 26839.8 Da    PI: 7.7667
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00111579001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3102.72e-3232141199
                          EEEE-..-HHHHTT-EE--HHH.HTT...........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 
                          f+k ltpsdv+k++rlv+pk++ae++           ++ +e+++ l++edesg+ W+++++y+++s++yvltkGW+++vk+++L++gD+
  GSBRNA2T00111579001  32 FEKSLTPSDVGKLNRLVIPKQHAEKYlplnngggevtSETTEKGMLLSFEDESGKCWKFRYSYWNSSQSYVLTKGWSKYVKDKHLDAGDV 121
                          99******************************99998777789*********************************************** PP

                          EEEEE-SS.SEE..EEEEE-S CS
                   B3  80 vvFkldgr.sefelvvkvfrk 99 
                          v F+++ r +  +l+++++r+
  GSBRNA2T00111579001 122 VFFQRH-RfDFHRLFIGWRRR 141
                          ****65.44888899999987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.0E-3925151IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.45E-3128142IPR015300DNA-binding pseudobarrel domain
CDDcd100179.59E-3031132No hitNo description
PfamPF023621.9E-2932141IPR003340B3 DNA binding domain
SMARTSM010196.1E-2432142IPR003340B3 DNA binding domain
PROSITE profilePS5086313.39432142IPR003340B3 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: 237 aa     Download sequence    Send to blast
MLGNHYSRDI HHNTLSLHPH QNDTASHKES LFEKSLTPSD VGKLNRLVIP KQHAEKYLPL  60
NNGGGEVTSE TTEKGMLLSF EDESGKCWKF RYSYWNSSQS YVLTKGWSKY VKDKHLDAGD  120
VVFFQRHRFD FHRLFIGWRR RGEASSLSAV SQEARVNTTA YWSGLTTPYR QVEASTSSYP  180
NIHQEYSQYG AVAETPTVVA GTSRTVRLFG VNLECHGDVV EPPPCSDGYN GQHIYY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A2e-47261412113B3 domain-containing transcription factor NGA1
5os9_B2e-47261412113B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.54281e-173seed
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00111579001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0081531e-128AC008153.5 Arabidopsis thaliana chromosome 3 BAC F24K9 genomic sequence, complete sequence.
GenBankAJ4410761e-128AJ441076.1 Arabidopsis thaliana mRNA for putative auxin response factor 32 (arf32 gene).
GenBankAK1752811e-128AK175281.1 Arabidopsis thaliana mRNA for putative DNA binding protein, complete cds, clone: RAFL21-71-N13.
GenBankBT0293711e-128BT029371.1 Arabidopsis thaliana At3g11580 mRNA, complete cds.
GenBankCP0026861e-128CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018513509.11e-179PREDICTED: B3 domain-containing protein At3g11580-like
RefseqXP_018513510.11e-179PREDICTED: B3 domain-containing protein At3g11580-like
RefseqXP_018513511.11e-179PREDICTED: B3 domain-containing protein At3g11580-like
RefseqXP_022572049.11e-179B3 domain-containing protein At3g11580
RefseqXP_022572050.11e-179B3 domain-containing protein At3g11580
RefseqXP_022572051.11e-179B3 domain-containing protein At3g11580
SwissprotQ8RYD31e-126Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBLA0A398A1Z81e-177A0A398A1Z8_BRACM; Uncharacterized protein
TrEMBLM4CB321e-177M4CB32_BRARP; Uncharacterized protein
STRINGBra001411.1-P1e-178(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM122028100
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G11580.11e-128B3 family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]