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 GSBRNA2T00129473001
Common NameGSBRNA2T00129473001, LOC106380034
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: 266aa    MW: 29896.4 Da    PI: 4.5501
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00129473001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.99.1e-1913102198
                          EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                          ffkv+   + ++s  + +p +f e+ + +   +++ +l+ + g +W+v++  +  ++  ++t+GW++F+++++Lk+g+f++F +dg+++f
  GSBRNA2T00129473001  13 FFKVF--LSETASESMAIPMSFNEHLEDP--LPQKAKLQGTGGGVWTVTF--TTIRDCAYFTSGWSKFAEDHELKDGEFLTFVYDGHHTF 96 
                          88999..666777779******9655655..8889***************..666666889************************98888 PP

                          ..EEEEE- CS
                   B3  91 elvvkvfr 98 
                             v+vf 
  GSBRNA2T00129473001  97 --EVSVFG 102
                          ..777775 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.75E-2310106IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.0E-2111103IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.25311104IPR003340B3 DNA binding domain
CDDcd100171.74E-1811101No hitNo description
PfamPF023621.2E-1513101IPR003340B3 DNA binding domain
SMARTSM010191.3E-2113104IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.4E-7169259IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.32E-9170249IPR015300DNA-binding pseudobarrel domain
SMARTSM010190.1174262IPR003340B3 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: 266 aa     Download sequence    Send to blast
MAENEDDVVL PRFFKVFLSE TASESMAIPM SFNEHLEDPL PQKAKLQGTG GGVWTVTFTT  60
IRDCAYFTSG WSKFAEDHEL KDGEFLTFVY DGHHTFEVSV FGHGRCKETR AVVETVDLSD  120
SGEEEEEEDS SVEDDGEVEK VSQSIYPVDS NQTVSDDAVV AWLSSMEVTG NPCFTTNLKQ  180
RTYELLIPAN VVREHALTFG DNIKYIDAEG VMKGVRGKWA EDRVCFKGWD SICRRNRLKE  240
RDTVNCEMLH IRKKVHSVKI TVTCG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1yel_A8e-201210610104At1g16640
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00129473001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892690.0AC189269.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB023B16, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009116025.10.0PREDICTED: B3 domain-containing protein REM20
RefseqXP_013675315.10.0B3 domain-containing protein REM20
SwissprotQ8LAV57e-94REM20_ARATH; B3 domain-containing protein REM20
TrEMBLM4CRZ70.0M4CRZ7_BRARP; Uncharacterized protein
STRINGBra006989.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15612380
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G53310.12e-83B3 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. 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]
  3. 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]