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

GSBRNA2T00018772001

Common Name

GSBRNA2T00018772001

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: 1640aa MW: 183961 Da PI: 5.1012

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00018772001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	56.7	4.1e-18	23	79	1	57
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++kR t+ ql++Le+ ++ ++yps++ r++L+ +l+L++rq ++WF+ rR k++k GSBRNA2T00018772001 23 KSKRKMKTAAQLQVLENTYKAEPYPSEALRADLSVQLNLSDRQLQMWFCHRRLKDRK 79 679****************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	4.7E-17	6	79	IPR009057	Homeodomain-like
SuperFamily	SSF46689	2.01E-15	18	80	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.601	20	80	IPR001356	Homeobox domain
SMART	SM00389	2.9E-16	22	84	IPR001356	Homeobox domain
CDD	cd00086	9.92E-14	23	81	No hit	No description
Pfam	PF00046	9.5E-16	23	79	IPR001356	Homeobox domain
SMART	SM00571	3.7E-23	529	588	IPR018501	DDT domain
PROSITE profile	PS50827	16.574	529	588	IPR018501	DDT domain
Pfam	PF02791	1.5E-16	530	585	IPR018501	DDT domain
Pfam	PF05066	1.7E-15	711	778	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	4.0E-7	904	942	IPR028942	WHIM1 domain
Pfam	PF15613	5.3E-12	1057	1129	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: 1640 aa Download sequence Send to blast
MEDGSEADKN VTPEGAAAAT ESKSKRKMKT AAQLQVLENT YKAEPYPSEA LRADLSVQLN 60 LSDRQLQMWF CHRRLKDRKS STPTKRQRKE STPSSAAESS KQAAAVNAAD LVAGNELNSF 120 DSRRTARGGG GGGVTVVRRF NEPSPTEVRA IGYVEAQLGE RLREDGPILG MEFDPLPPGA 180 FGTPIAEMPT HRKAATRPAF ETNLYVRSDV KPVKESVRTI REYQFLPEQP SSRTDHSERA 240 SPASHHYGVP LDASVVMRAS SVSGGHRDDY KVSPPIPNLN LSAHHVKPGH VLGEYDSPYQ 300 KSYVDPTLHG NEDPFVKSER ELGNDDDDED DDGDVLLQLE RKRKSEEARI AREVEAHEKR 360 IRKELERQDM LRRKREEQIR KEVERQDRER RKEEERLLRE RQREEERYLK EQMKEMQRRE 420 KFLKKETIRA EKMRQKEEMR RVKEVARLKA ANERAMARKI AKESMELIED ERLELMEVAA 480 LSLGLPSMVA LDFETLQNLD AYRDKQVTFP PTSVNLKKPF AVKPWNGSDE NIANLLMVWR 540 FLINFADVLG LWPFTLDEFT QAFHDHDPRL MGEIHIVLLK TIIKDIEGVA RTLSVGVGAN 600 QNAAANPGGG HPHLVEGAYA WGFDIRSWRK NLNVFTWPEI LRQLALSAGF GPELKKQDIK 660 TMSVHDENEA NNSENVIFNL RIGAAAENAF AKMQEKGLSN PRRSRHRLTP GTVKFAAFHV 720 LSIEGEKGLT ILEVAEKIQK SGLRDLTTSR TPEASVAAAL SRDTKLFERV APSTYCVRPS 780 YRKDAGDAET IFAEARERIR MFKSGVTDVE DVDEAEREED SDSDVGDEPE VDLNLKKEDP 840 DALEEIGKLT GGVEPSLENG KLETEPEANP LTPSLPEEST KDEKIDDILP DQEDGDCFDV 900 SKLGEQWVQG LVEGDYSSLS IEERLNALVA LIGIAIEGNT IRISLEERLE VASALKKQMW 960 SEVQLDKRWK EESLIRANYL SYPTPKTQES PSASQDPLSL PQIDVAAGPS LQLQENVSGM 1020 ENLQYHHQQS YTADRERLRA ELKAYVGYKA EELYVYRSLP LGLDRRRNRY WRFSASASRN 1080 DPGCGRIFVE LQDGRWRLID SEEGFDCLVK SLDVRGVRES HLHFMLLKME ASFKEAVRRN 1140 VETSTGLDTD TAEISSTFKI ELGDGGRSGV LQRFQSFERW MWDNMVHPGA LSAFKYGAKK 1200 STPLFHICRS CAELHFAVDV CCPGCGQMMM SGGLDVSEMC FADQLGEISR RDAGFILRGS 1260 NLSPLRIRLL KIQLALVEAS LPPEGLQTHW TESLRKTWGL KLLSSSSPEE LHQVLAMLEV 1320 ALKKDFLSSN FETTCELLDL SEEALVRDVK VVPWIPKTTG GVALRLFELD SSIAYTPDQN 1380 KDPQKDKESE DFVGLETNFL RNVQEHDVIE ATPVQVAYAQ EDTEPGSGRG RPPRGRGRPR 1440 SQRGKKPSPA SGKPPRSAAN SNGEPMLRPR AQPRGGRKKG RRSSGTRTRP TKGTLGISNE 1500 VVGVGGGGRR GKEVNVNAKT ALHDWVVETP DDDGEASSSG RSFQYDDDVM APVDDFGESS 1560 KLVGRGEFSL HSDDEYEEED MDTKMNVDDE DEDYINEEDS DGGREQATEM ISMDDAAASQ 1620 RRFPFEDPDL TSSSSSDFQ*

Sequence ? help Back to Top

Protein Sequence Length: 1640 aa Download sequence Send to blast

MEDGSEADKN VTPEGAAAAT ESKSKRKMKT AAQLQVLENT YKAEPYPSEA LRADLSVQLN  60
LSDRQLQMWF CHRRLKDRKS STPTKRQRKE STPSSAAESS KQAAAVNAAD LVAGNELNSF  120
DSRRTARGGG GGGVTVVRRF NEPSPTEVRA IGYVEAQLGE RLREDGPILG MEFDPLPPGA  180
FGTPIAEMPT HRKAATRPAF ETNLYVRSDV KPVKESVRTI REYQFLPEQP SSRTDHSERA  240
SPASHHYGVP LDASVVMRAS SVSGGHRDDY KVSPPIPNLN LSAHHVKPGH VLGEYDSPYQ  300
KSYVDPTLHG NEDPFVKSER ELGNDDDDED DDGDVLLQLE RKRKSEEARI AREVEAHEKR  360
IRKELERQDM LRRKREEQIR KEVERQDRER RKEEERLLRE RQREEERYLK EQMKEMQRRE  420
KFLKKETIRA EKMRQKEEMR RVKEVARLKA ANERAMARKI AKESMELIED ERLELMEVAA  480
LSLGLPSMVA LDFETLQNLD AYRDKQVTFP PTSVNLKKPF AVKPWNGSDE NIANLLMVWR  540
FLINFADVLG LWPFTLDEFT QAFHDHDPRL MGEIHIVLLK TIIKDIEGVA RTLSVGVGAN  600
QNAAANPGGG HPHLVEGAYA WGFDIRSWRK NLNVFTWPEI LRQLALSAGF GPELKKQDIK  660
TMSVHDENEA NNSENVIFNL RIGAAAENAF AKMQEKGLSN PRRSRHRLTP GTVKFAAFHV  720
LSIEGEKGLT ILEVAEKIQK SGLRDLTTSR TPEASVAAAL SRDTKLFERV APSTYCVRPS  780
YRKDAGDAET IFAEARERIR MFKSGVTDVE DVDEAEREED SDSDVGDEPE VDLNLKKEDP  840
DALEEIGKLT GGVEPSLENG KLETEPEANP LTPSLPEEST KDEKIDDILP DQEDGDCFDV  900
SKLGEQWVQG LVEGDYSSLS IEERLNALVA LIGIAIEGNT IRISLEERLE VASALKKQMW  960
SEVQLDKRWK EESLIRANYL SYPTPKTQES PSASQDPLSL PQIDVAAGPS LQLQENVSGM  1020
ENLQYHHQQS YTADRERLRA ELKAYVGYKA EELYVYRSLP LGLDRRRNRY WRFSASASRN  1080
DPGCGRIFVE LQDGRWRLID SEEGFDCLVK SLDVRGVRES HLHFMLLKME ASFKEAVRRN  1140
VETSTGLDTD TAEISSTFKI ELGDGGRSGV LQRFQSFERW MWDNMVHPGA LSAFKYGAKK  1200
STPLFHICRS CAELHFAVDV CCPGCGQMMM SGGLDVSEMC FADQLGEISR RDAGFILRGS  1260
NLSPLRIRLL KIQLALVEAS LPPEGLQTHW TESLRKTWGL KLLSSSSPEE LHQVLAMLEV  1320
ALKKDFLSSN FETTCELLDL SEEALVRDVK VVPWIPKTTG GVALRLFELD SSIAYTPDQN  1380
KDPQKDKESE DFVGLETNFL RNVQEHDVIE ATPVQVAYAQ EDTEPGSGRG RPPRGRGRPR  1440
SQRGKKPSPA SGKPPRSAAN SNGEPMLRPR AQPRGGRKKG RRSSGTRTRP TKGTLGISNE  1500
VVGVGGGGRR GKEVNVNAKT ALHDWVVETP DDDGEASSSG RSFQYDDDVM APVDDFGESS  1560
KLVGRGEFSL HSDDEYEEED MDTKMNVDDE DEDYINEEDS DGGREQATEM ISMDDAAASQ  1620
RRFPFEDPDL TSSSSSDFQ*

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 (PubMed:22694359). Involved in the transcriptional regulation of seed-specific gene expression (PubMed:23872538). {ECO:0000269\|PubMed:22694359, ECO:0000269\|PubMed:23872538}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00018772001

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	AB005239	2e-94	AB005239.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MLN1.
GenBank	CP002688	2e-94	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013706142.1	0.0	homeobox-DDT domain protein RLT2-like isoform X1
Swissprot	Q9FFH1	0.0	RLT2_ARATH; Homeobox-DDT domain protein RLT2
TrEMBL	A0A078G748	0.0	A0A078G748_BRANA; BnaA06g36270D protein
STRING	Bra033725.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9601	25	30

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44180.1	0.0	Homeodomain-like transcriptional regulator

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]