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

GSBRNA2T00059191001

Common Name

GSBRNA2T00059191001

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: 1549aa MW: 174786 Da PI: 5.0676

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00059191001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.8	4.4e-19	37	93	1	57
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++kR+ t+ ql++Le++++++ yps+++r+eL++kl+L++rq ++WF+ rR k+kk GSBRNA2T00059191001 37 KSKRQMKTPFQLQTLEKVYAEETYPSEATRAELSEKLDLSDRQLQMWFCHRRLKDKK 93 689****************************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	2.65E-16	33	93	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.39	34	94	IPR001356	Homeobox domain
SMART	SM00389	8.2E-19	36	98	IPR001356	Homeobox domain
CDD	cd00086	3.57E-15	37	93	No hit	No description
Pfam	PF00046	1.0E-16	37	93	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.2E-17	39	93	IPR009057	Homeodomain-like
SMART	SM00571	2.1E-23	490	549	IPR018501	DDT domain
PROSITE profile	PS50827	17.206	490	549	IPR018501	DDT domain
Pfam	PF02791	6.2E-17	491	546	IPR018501	DDT domain
Pfam	PF05066	3.6E-13	672	739	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	1.4E-6	847	889	IPR028942	WHIM1 domain
Pfam	PF15613	8.2E-11	973	1044	IPR028941	WHIM2 domain

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:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1549 aa Download sequence Send to blast
MEMGSDEEDQ IKNVVDGHKN KKKKIDTFNN KDSLTSKSKR QMKTPFQLQT LEKVYAEETY 60 PSEATRAELS EKLDLSDRQL QMWFCHRRLK DKKDGQAKKP VQPAAPVLSS VNELPAAKSV 120 PELDSGSGCS PYSESRMNFA SGSGSSGADL GEYEKGGYEP PRLSVMVRRA VVCVEAQLGE 180 PLREDGPVLG MEFDQLPPGA FGTPIAMEKH QGLPYESKMY EPHDVRPRRS AARSLDDPSS 240 YTPEINGRYS ESHARGMDYE TSRSKNSSYM HGNGPYGTRG NASLNCSTSQ QDMPSPIAPS 300 AHGDISLLER KVNDGRVGRG SGQKDPEKLE IQKKKYEERT RKEMERHERE RRKEEERLMR 360 ERIKEEEKLQ REHRREMERR EKFLQRENER AEKQKQKDEI RRERDAIRRK IAIEKATARR 420 IARESMDLIE DEQLELMDLA AASKGLPSVL QLDHDTLQNL ELYRDSLSSF PPKALQLKMP 480 FTISPWKDSE ENVANLLMVW RFLISFSDVL DLWPFTLDEF IQAFHDYDSR LLGEIHITLL 540 RSIIRDIEDV ARTRYSGIGN NQYTTANPEG GHPQIVEGAY AWGFDIRSWK NHLNPLTWPE 600 ILRQLALSSG FGPKLKKKNS HVTQTAHKDE AKGYEDIVST IRSGSAAESA FASMLEKGLL 660 APRKSRHRLT PGTVKFAALH VLSLEGSKGL TLIELADKIQ KSGLRDLSTS KTPEASISVA 720 LTRDVKLFER IAPCTYCVRA PYVKDPADGE AILADARKKI RAFENGLTGP EDLNDLERDE 780 DFECDVDEDP EVDDLATPAR ASNGLSGKRE DAMFCDVKSI VPQHHSKDSA VSCVDDNNDV 840 VEDSNQGQSW IQGLTEGDYC HLSVEERLEA LVALVGIVNE GNSLRASLED RMEAANSLKK 900 QMLAEAQLDN SCMRDVLKLD RDPSQRMDES KPMEAERGFS NQEAAQENCS SKRSRSQLKS 960 YIGDKAEEVY PYRSLPLGQD RRRNRYWHFA ASASKTDPCS GLIFVELHDG KWRLIDSEEA 1020 FDFLVASLDM RGIRESHLGI MLLKIEGSFK ENACKNTRAD SVSPSSAISG SNSDSMEAST 1080 SIRVELGRND REKECLSKRF HGFQRWMWTE TYSSLPSCAR RHGKKRCELL ATCEVCVASY 1140 LSEYTHCTSC HRRLNMFYSS ERKILDSALT ASPLPFGVRL LKALLVFLEA CVPDEALESF 1200 WTEDKRKDWG FRLNDSSSPE ELLQVLISLE SAIKKESLSS NFVTAKELLG AADGSGSMDV 1260 FPWIPKTVSA VALRLLDLDA SILYVKPEKP EQISEDDKEQ ISLFPGKSLT KGKGAKEQED 1320 QDEVVVSNSG KKSKKRRVRF GSVTNRKAKR TKVQGGPNRF VAGRSNVVMD RNLVGVELNH 1380 HQVPGRGKRT VRKRPERNDE DSYRLVRRMA DIVRPNSEEV EEEEEEEEEE QTFRDINEDW 1440 ASETPDRVMM PMQVDDESDN NVGVESEDDD DEGQFVVYDQ RNKWGLDWNS NLNEAMEDDE 1500 EEVVGAAQVE REDVAEMSEG SEDDDVPANN AAANNYESGS EDYSSSDS*

Sequence ? help Back to Top

Protein Sequence Length: 1549 aa Download sequence Send to blast

MEMGSDEEDQ IKNVVDGHKN KKKKIDTFNN KDSLTSKSKR QMKTPFQLQT LEKVYAEETY  60
PSEATRAELS EKLDLSDRQL QMWFCHRRLK DKKDGQAKKP VQPAAPVLSS VNELPAAKSV  120
PELDSGSGCS PYSESRMNFA SGSGSSGADL GEYEKGGYEP PRLSVMVRRA VVCVEAQLGE  180
PLREDGPVLG MEFDQLPPGA FGTPIAMEKH QGLPYESKMY EPHDVRPRRS AARSLDDPSS  240
YTPEINGRYS ESHARGMDYE TSRSKNSSYM HGNGPYGTRG NASLNCSTSQ QDMPSPIAPS  300
AHGDISLLER KVNDGRVGRG SGQKDPEKLE IQKKKYEERT RKEMERHERE RRKEEERLMR  360
ERIKEEEKLQ REHRREMERR EKFLQRENER AEKQKQKDEI RRERDAIRRK IAIEKATARR  420
IARESMDLIE DEQLELMDLA AASKGLPSVL QLDHDTLQNL ELYRDSLSSF PPKALQLKMP  480
FTISPWKDSE ENVANLLMVW RFLISFSDVL DLWPFTLDEF IQAFHDYDSR LLGEIHITLL  540
RSIIRDIEDV ARTRYSGIGN NQYTTANPEG GHPQIVEGAY AWGFDIRSWK NHLNPLTWPE  600
ILRQLALSSG FGPKLKKKNS HVTQTAHKDE AKGYEDIVST IRSGSAAESA FASMLEKGLL  660
APRKSRHRLT PGTVKFAALH VLSLEGSKGL TLIELADKIQ KSGLRDLSTS KTPEASISVA  720
LTRDVKLFER IAPCTYCVRA PYVKDPADGE AILADARKKI RAFENGLTGP EDLNDLERDE  780
DFECDVDEDP EVDDLATPAR ASNGLSGKRE DAMFCDVKSI VPQHHSKDSA VSCVDDNNDV  840
VEDSNQGQSW IQGLTEGDYC HLSVEERLEA LVALVGIVNE GNSLRASLED RMEAANSLKK  900
QMLAEAQLDN SCMRDVLKLD RDPSQRMDES KPMEAERGFS NQEAAQENCS SKRSRSQLKS  960
YIGDKAEEVY PYRSLPLGQD RRRNRYWHFA ASASKTDPCS GLIFVELHDG KWRLIDSEEA  1020
FDFLVASLDM RGIRESHLGI MLLKIEGSFK ENACKNTRAD SVSPSSAISG SNSDSMEAST  1080
SIRVELGRND REKECLSKRF HGFQRWMWTE TYSSLPSCAR RHGKKRCELL ATCEVCVASY  1140
LSEYTHCTSC HRRLNMFYSS ERKILDSALT ASPLPFGVRL LKALLVFLEA CVPDEALESF  1200
WTEDKRKDWG FRLNDSSSPE ELLQVLISLE SAIKKESLSS NFVTAKELLG AADGSGSMDV  1260
FPWIPKTVSA VALRLLDLDA SILYVKPEKP EQISEDDKEQ ISLFPGKSLT KGKGAKEQED  1320
QDEVVVSNSG KKSKKRRVRF GSVTNRKAKR TKVQGGPNRF VAGRSNVVMD RNLVGVELNH  1380
HQVPGRGKRT VRKRPERNDE DSYRLVRRMA DIVRPNSEEV EEEEEEEEEE QTFRDINEDW  1440
ASETPDRVMM PMQVDDESDN NVGVESEDDD DEGQFVVYDQ RNKWGLDWNS NLNEAMEDDE  1500
EEVVGAAQVE REDVAEMSEG SEDDDVPANN AAANNYESGS EDYSSSDS*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	86	93	RRLKDKKD

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in growing tissues such as inflorescence and flower meristems, young leaves and floral organs. Expressed in roots, rosette and cauline leaves, stems, flowers, inflorescences and siliques. {ECO:0000269\|PubMed:22694359}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for the maintenance of the plant vegetative phase. In association with CHR11 or CHR17 may prevent the early activation of the vegetative-to-reproductive transition by regulating key genes that contribute to flower timing, such as FT, SEP1, SEP3, AGL8/FUL, SOC1 and FLC. {ECO:0000269\|PubMed:22694359}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00059191001

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_013685409.1	0.0	homeobox-DDT domain protein RLT1
Swissprot	F4HY56	0.0	RLT1_ARATH; Homeobox-DDT domain protein RLT1
TrEMBL	A0A078HG02	0.0	A0A078HG02_BRANA; BnaC03g58690D protein
STRING	Bo3g143570.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8347	22	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G28420.1	0.0	homeobox-1

Link Out ? help Back to Top
Entrez Gene	106389640

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]