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

GSBRNA2T00150691001

Common Name

GSBRNA2T00150691001

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: 1574aa MW: 177282 Da PI: 5.0436

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00150691001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.9	4.2e-19	39	95	1	57
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++kR+ t+ ql++Lee+++++ yps+++r+eL++kl+L++rq ++WF+ rR k+kk GSBRNA2T00150691001 39 KSKRQMKTPFQLQTLEEVYAEETYPSEATRAELSEKLDLSDRQLQMWFCHRRLKDKK 95 689****************************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	5.13E-16	35	95	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.309	36	96	IPR001356	Homeobox domain
SMART	SM00389	1.7E-18	38	100	IPR001356	Homeobox domain
CDD	cd00086	8.23E-15	39	95	No hit	No description
Pfam	PF00046	9.4E-17	39	95	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	6.3E-17	41	95	IPR009057	Homeodomain-like
SMART	SM00571	6.0E-24	503	562	IPR018501	DDT domain
PROSITE profile	PS50827	17.54	503	562	IPR018501	DDT domain
Pfam	PF02791	1.5E-17	504	559	IPR018501	DDT domain
Pfam	PF05066	3.6E-13	685	752	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	4.0E-6	864	906	IPR028942	WHIM1 domain
Pfam	PF15613	2.3E-11	995	1067	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: 1574 aa Download sequence Send to blast
MEMGSDEEDQ IKNVNVGDVN KNKKKKIDTF NNKDSLSSKS KRQMKTPFQL QTLEEVYAEE 60 TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQAK KPFQPAATPA LSSVNELPAA 120 DDRSGSGSGS GCSPYSESRR NFESGSGSSG ADLGEYEKGG YEPPRLSVMV RRAVVCVEAQ 180 LGEPLREDGP VLGMEFDLLP PGAFGTPIAM QTHQGHLYES KMYEPHDVRP PRSAARSFHE 240 QQSLDDPSSY TPEINGRYSE SHARGMDYET SRSKSSSFMH GNGPVPRPYG THGNASLNGS 300 TSQQDMSSPI VPSAHGDSFL LERKVNDGRV GRGSGQKDPE KLEIQRKKYQ ERMRKEMERH 360 ERERRKEEER LMRERIKEEE KLQREQRREM ERREKFLQRE NERAEKQKQK DEIRRERDAI 420 RRKIAIEKAT ARRIARESMD LIEDEQLELM DLAAASKGLP SVLQLDHDTL QNLELYRDSL 480 SAFPPKALQL KMPFTISPWK DSEENVGNLL MVWRFLISFS DVLDLWPFTL DEFIQAFHDY 540 DSRLLGEIHI TLLRSIIRDI EDVARTPYSG IGNNQYTTAN PEGGHPQIVE GAYAWGFDIR 600 SWKNHLNPLT WPEILRQLAL SSGFGPKLKN KSSHVTQTAH KNEAKDCEDI ISTIRSGSAA 660 ESAFASMLEK GLLAPRKSRH RLTPGTVKFA ALHVLSLEGS KGLTLIELAD KIQKSGLRDL 720 STSKTPEASI SVALTRDVKL FERIAPCTYC VRAPYVKDPA DGDAILADAR KKIKAFENGL 780 TGPEDLNDLE RDEDFECDVD EDPEVDDLAT PARASNGLSG KGEDAMFCDV KADAKSIVPQ 840 YHSKDSAVSC VDDNNDVVED SNKGQSWIQG LTEGDYCHLS VEERLEALVT LVGIVNEGNS 900 LRASLEDRME AANSLKKQMW AEAQLDNSCM RDVLKLDRDP SQRMDESKPM EAVSNDLHKG 960 FSNQEATQEN CSSKRSRSQL KSYIGDKAEE VYPYRSLPLG QDRRRNRYWH FAASASKTDP 1020 CSGLIFVELH DGKWRLIDSE EAFDFLVASL DMRGIRESHL RIMLLKIEGS FKENAYKAKS 1080 VVNHSPADSV SPSSAIFGSN SDSMEASTSI RVELGRNDRE KESLSKRFHD FQRWMWTETY 1140 SSLPSCARKH GKKRCELLAT CEVCVASYLS EYTHCTSCHR RLSMFDSSER KILDSALTAS 1200 PLPFGARLLK ALLVFLEACV PDEALESFWT ENKRKDWGFR LNASSSPEEL LQVLTSLDSA 1260 IKKESLSSSF VSAKELSGAA DDSGSVDVFP WIPKTISAVA LRLLDLDAFI IYVKPEKPEL 1320 ISEDDKEQIS LFPGKSLIKG KGAKEQEDQD EVIVSNSGKK SKKRRVRFGR VSNRNVKRKK 1380 VQESPDRFVA GRSDVSVDRN LGSVALNHHQ VPGRGKRTVR KRPERNDEDN YRLVSRMADI 1440 VRPNSEDVEE EEEDEQTFRD INEDWASETP REMEVMTPMQ VDDESDNSVG VESEDDDEGQ 1500 FVVYDQRNKW GLDWNSNPNE AMEDDEEVVG AVQVEREDVA EMSESSEDDD VPANNAAANN 1560 FESGSEDYSS SDS*

Sequence ? help Back to Top

Protein Sequence Length: 1574 aa Download sequence Send to blast

MEMGSDEEDQ IKNVNVGDVN KNKKKKIDTF NNKDSLSSKS KRQMKTPFQL QTLEEVYAEE  60
TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQAK KPFQPAATPA LSSVNELPAA  120
DDRSGSGSGS GCSPYSESRR NFESGSGSSG ADLGEYEKGG YEPPRLSVMV RRAVVCVEAQ  180
LGEPLREDGP VLGMEFDLLP PGAFGTPIAM QTHQGHLYES KMYEPHDVRP PRSAARSFHE  240
QQSLDDPSSY TPEINGRYSE SHARGMDYET SRSKSSSFMH GNGPVPRPYG THGNASLNGS  300
TSQQDMSSPI VPSAHGDSFL LERKVNDGRV GRGSGQKDPE KLEIQRKKYQ ERMRKEMERH  360
ERERRKEEER LMRERIKEEE KLQREQRREM ERREKFLQRE NERAEKQKQK DEIRRERDAI  420
RRKIAIEKAT ARRIARESMD LIEDEQLELM DLAAASKGLP SVLQLDHDTL QNLELYRDSL  480
SAFPPKALQL KMPFTISPWK DSEENVGNLL MVWRFLISFS DVLDLWPFTL DEFIQAFHDY  540
DSRLLGEIHI TLLRSIIRDI EDVARTPYSG IGNNQYTTAN PEGGHPQIVE GAYAWGFDIR  600
SWKNHLNPLT WPEILRQLAL SSGFGPKLKN KSSHVTQTAH KNEAKDCEDI ISTIRSGSAA  660
ESAFASMLEK GLLAPRKSRH RLTPGTVKFA ALHVLSLEGS KGLTLIELAD KIQKSGLRDL  720
STSKTPEASI SVALTRDVKL FERIAPCTYC VRAPYVKDPA DGDAILADAR KKIKAFENGL  780
TGPEDLNDLE RDEDFECDVD EDPEVDDLAT PARASNGLSG KGEDAMFCDV KADAKSIVPQ  840
YHSKDSAVSC VDDNNDVVED SNKGQSWIQG LTEGDYCHLS VEERLEALVT LVGIVNEGNS  900
LRASLEDRME AANSLKKQMW AEAQLDNSCM RDVLKLDRDP SQRMDESKPM EAVSNDLHKG  960
FSNQEATQEN CSSKRSRSQL KSYIGDKAEE VYPYRSLPLG QDRRRNRYWH FAASASKTDP  1020
CSGLIFVELH DGKWRLIDSE EAFDFLVASL DMRGIRESHL RIMLLKIEGS FKENAYKAKS  1080
VVNHSPADSV SPSSAIFGSN SDSMEASTSI RVELGRNDRE KESLSKRFHD FQRWMWTETY  1140
SSLPSCARKH GKKRCELLAT CEVCVASYLS EYTHCTSCHR RLSMFDSSER KILDSALTAS  1200
PLPFGARLLK ALLVFLEACV PDEALESFWT ENKRKDWGFR LNASSSPEEL LQVLTSLDSA  1260
IKKESLSSSF VSAKELSGAA DDSGSVDVFP WIPKTISAVA LRLLDLDAFI IYVKPEKPEL  1320
ISEDDKEQIS LFPGKSLIKG KGAKEQEDQD EVIVSNSGKK SKKRRVRFGR VSNRNVKRKK  1380
VQESPDRFVA GRSDVSVDRN LGSVALNHHQ VPGRGKRTVR KRPERNDEDN YRLVSRMADI  1440
VRPNSEDVEE EEEDEQTFRD INEDWASETP REMEVMTPMQ VDDESDNSVG VESEDDDEGQ  1500
FVVYDQRNKW GLDWNSNPNE AMEDDEEVVG AVQVEREDVA EMSESSEDDD VPANNAAANN  1560
FESGSEDYSS SDS*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	88	95	RRLKDKKD
2	1362	1379	KRRVRFGRVSNRNVKRKK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.28505	0.0	seed

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	GSBRNA2T00150691001

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_009109718.1	0.0	PREDICTED: homeobox-DDT domain protein RLT1-like isoform X1
Swissprot	F4HY56	0.0	RLT1_ARATH; Homeobox-DDT domain protein RLT1
TrEMBL	A0A397YEK5	0.0	A0A397YEK5_BRACM; Uncharacterized protein
STRING	Bra010869.1-P	0.0	(Brassica rapa)

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

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]