PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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 Name

GSBRNA2T00104345001

Organism

Brassica napus

Taxonomic ID

3708

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
GSBRNA2T00104345001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	15	4.4e-05	633	693	1	54
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

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	1.0E-5	618	694	IPR009057	Homeodomain-like
PROSITE profile	PS50071	10.398	630	697	IPR001356	Homeobox domain
SMART	SM00389	0.003	632	701	IPR001356	Homeobox domain
CDD	cd00086	0.00328	633	696	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA 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*

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

No.	Start	End	Sequence
1	631	636	KKRKRS

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE 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
UniProt	Regulates 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
Source	Link
PlantRegMap	GSBRNA2T00104345001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009144524.1	0.0	PREDICTED: nodulin homeobox-like
Swissprot	F4JI44	0.0	NDX_ARATH; Nodulin homeobox
TrEMBL	A0A398AJS9	0.0	A0A398AJS9_BRACM; Uncharacterized protein
STRING	Bo2g103290.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8179	6	7

Publications ? help Back to Top
Mukherjee K,Brocchieri L,Bürglin TR A comprehensive classification and evolutionary analysis of plant homeobox genes. Mol. Biol. Evol., 2009. 26(12): p. 2775-94 [PMID:19734295] 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]