PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00041330001

Common Name

GSBRNA2T00041330001

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

HD-ZIP

Protein Properties

Length: 265aa MW: 30771.3 Da PI: 6.4483

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00041330001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	52.3	9.7e-17	75	127	4	56
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 + +++ eq+++Le+ Fe +++ e++ +LAk lg++ rq+ +WFqNrRa++k GSBRNA2T00041330001 75 KKRLQLEQVKVLEKSFELGNKLEPERKIQLAKALGMQLRQIAIWFQNRRARWK 127 4457889*********************************************9 PP
2	HD-ZIP_I/II	102.3	4.3e-33	73	142	1	70
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkray 70 ekk+rl+ eqvk+LE+sFe +kLeperK +la++Lg+q rq+a+WFqnrRAR+kt+qlE+dy++Lk++ GSBRNA2T00041330001 73 EKKKRLQLEQVKVLEKSFELGNKLEPERKIQLAKALGMQLRQIAIWFQNRRARWKTRQLERDYDSLKKQN 142 69*****************************************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	4.28E-18	69	131	IPR009057	Homeodomain-like
SMART	SM00389	1.5E-15	72	133	IPR001356	Homeobox domain
PROSITE profile	PS50071	15.742	73	129	IPR001356	Homeobox domain
CDD	cd00086	1.65E-14	74	130	No hit	No description
Pfam	PF00046	5.4E-14	75	127	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.3E-17	77	137	IPR009057	Homeodomain-like
PRINTS	PR00031	5.9E-5	100	109	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	104	127	IPR017970	Homeobox, conserved site
PRINTS	PR00031	5.9E-5	109	125	IPR000047	Helix-turn-helix motif

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 265 aa Download sequence Send to blast
MALPQHAFMF QQRHEDNSHD QLPSCPPPHL FNGGGNYMMN RSMSLMNVQE DHHQSVDHEE 60 NLSDDGAHMM LGEKKKRLQL EQVKVLEKSF ELGNKLEPER KIQLAKALGM QLRQIAIWFQ 120 NRRARWKTRQ LERDYDSLKK QNFLLRLTEI ENSDTRTVMS LKNNDCNEGS IIKREAEASW 180 SNNGSIENSS DINLEIPRET TTTPVSTIKD LFPSSIRAST HHRQNHEMVQ EESLCNMFNG 240 IEETTTDGYW AWSDPNHNNH RQFN*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed 3 day after germination (DAG) in first rosette leaf primordia around the veins in the apical part of the leaf and close to the midvein in the basal part of the leaf. At later stage, expressed in new forming veins, and veins and fascicular cambium of mature leaves. {ECO:0000269\|PubMed:12644682}.
Uniprot	TISSUE SPECIFICITY: Widely expressed. {ECO:0000269\|PubMed:16055682}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00041330001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:12644682}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK228890	1e-142	AK228890.1 Arabidopsis thaliana mRNA for putative homeobox-leucine zipper protein, complete cds, clone: RAFL16-20-K05.
GenBank	AY087631	1e-142	AY087631.1 Arabidopsis thaliana clone 3722 mRNA, complete sequence.
GenBank	BT029221	1e-142	BT029221.1 Arabidopsis thaliana At3g01220 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009125041.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-20-like
Swissprot	Q8LAT0	1e-150	ATB20_ARATH; Homeobox-leucine zipper protein ATHB-20
TrEMBL	A0A078GT55	0.0	A0A078GT55_BRANA; BnaCnng05820D protein
STRING	Bo1g158730.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3095	26	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G01220.1	1e-152	homeobox protein 20

Publications ? help Back to Top
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]