PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00104345001
Common NameGSBRNA2T00104345001
Organism
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 HB-other
Protein Properties Length: 708aa    MW: 78908 Da    PI: 7.428
Description HB-other family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00104345001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox154.4e-05633693154
                          TT--SS--HHHHHHHHHHHHHSSS-..-HHHHHHHHHHC.....TS-HHHHHHHHHHHHHH CS
             Homeobox   1 rrkRttftkeqleeLeelFeknryp..saeereeLAkkl.....gLterqVkvWFqNrRak 54 
                          +rkR  ++++q+e +e++   ++ +  sa+ +++ A+kl     ++t  q k+W  NrRak
  GSBRNA2T00104345001 633 KRKRSIMSDDQVEMMEKAIVDEPDMrrSAAWIKKCAEKLnqngpRVTAMQLKNWLNNRRAK 693
                          79****************99866662266779****************************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.0E-5618694IPR009057Homeodomain-like
PROSITE profilePS5007110.398630697IPR001356Homeobox domain
SMARTSM003890.003632701IPR001356Homeobox domain
CDDcd000860.00328633696No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 708 aa     Download sequence    Send to blast
MLLQAKHLIP AVNGLHWRDS LEIHKLLQDN KDFCIYYNNV EKISVEKLAV ALPVHLLAVI  60
KAHNRDDKFE YLLSGIRLLH TLCELTSRHS KLDQVLLDDC VLSAMMVDLV INAMVALGGN  120
RKESWKSDNE SLVEATMVAS TLHLLHGFIS PEFVDIVQVL LAHSKVDLFI ETAFGAVHNV  180
VRSLEAKLLY RGSDHPKKCP LKSAKFHCQQ AEAALQFLHS LCQEKLFSER VAKNKELCGK  240
GGLLMLAKSI LSLSVSPGFV KEATTVASMY RIKAKVLSLL HHIFEADSVS FLDELERAGN  300
LHLAQPIASE VLSLLKLGLS DSPNDIASHE YPMGFVLLNA MRLAESTILS ALFCLSHEEF  360
VSMLCSSALS SREDDATLDY DLFKSAGWVL SVFSSSSLFD VPQFKLNFQN NLTMSSYANQ  420
RTSLVIKIMA NLHCFAPDVC IEEDRNRFIK AFVSGLRKDP VSMPIQLPNS SYTPVAQRAT  480
SVCRNICSLL RHADFLITNG LDVKDLMMFR VFCKQLQPLI RSEFEGSQAT VKQRKEPLNL  540
NIERASEEPN VRVEGAATKY NVNENMEIVP RLKESDADAC NLETSSLDTR SNRGKSLVED  600
GDGDGDGDVE LAHELFKGSG SGEVKEDEKQ GKKRKRSIMS DDQVEMMEKA IVDEPDMRRS  660
AAWIKKCAEK LNQNGPRVTA MQLKNWLNNR RAKIARAMSG KTSKGKK*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1631636KKRKRS
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed predominantly in dividing tissues such as young leaves, root tips, flower buds and embryos. {ECO:0000269|PubMed:23641115}.
Functional Description ? help Back to Top
Source Description
UniProtRegulates COOLAIR, a set of antisense transcripts originating from the 3' end of FLOWERING LOCUS C (FLC). Associates with single-stranded DNA that is part of an RNA-DNA hybrid, or R-loop, that covers the COOLAIR promoter. R-loop stabilization mediated by NDX inhibits COOLAIR transcription, which in turn modifies FLC expression. {ECO:0000269|PubMed:23641115}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00104345001
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_009144524.10.0PREDICTED: nodulin homeobox-like
SwissprotF4JI440.0NDX_ARATH; Nodulin homeobox
TrEMBLA0A398AJS90.0A0A398AJS9_BRACM; Uncharacterized protein
STRINGBo2g103290.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM817967
Publications ? help Back to Top
  1. Mukherjee K,Brocchieri L,B├╝rglin TR
    A comprehensive classification and evolutionary analysis of plant homeobox genes.
    Mol. Biol. Evol., 2009. 26(12): p. 2775-94
    [PMID:19734295]
  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]