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

XP_009113662.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 1662aa MW: 186407 Da PI: 5.066

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009113662.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58.1	1.5e-18	40	95	2	57
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 kR+ t+ ql++Le+++ ++ yps+++r+eL++kl+L++rq ++WF+ rR k+kk XP_009113662.1 40 PKRQMKTPFQLQTLEQVYSEETYPSEATRAELSEKLDLSDRQLQMWFCHRRLKDKK 95 69****************************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.6E-17	19	95	IPR009057	Homeodomain-like
SuperFamily	SSF46689	2.65E-16	31	95	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.342	36	96	IPR001356	Homeobox domain
SMART	SM00389	7.8E-18	38	100	IPR001356	Homeobox domain
Pfam	PF00046	3.3E-16	40	95	IPR001356	Homeobox domain
CDD	cd00086	4.61E-14	41	95	No hit	No description
SMART	SM00571	1.6E-23	537	596	IPR018501	DDT domain
PROSITE profile	PS50827	17.838	537	596	IPR018501	DDT domain
Pfam	PF02791	1.3E-18	538	593	IPR018501	DDT domain
Pfam	PF05066	4.2E-15	719	786	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	4.0E-7	916	958	IPR028942	WHIM1 domain
Pfam	PF15613	3.8E-13	1067	1139	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:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1662 aa Download sequence Send to blast
MESDGEENQM RSVADSNHKN KKMKKVVDAS NSKDSPSSKP KRQMKTPFQL QTLEQVYSEE 60 TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQVK KTPKPAPVQP ASAVPALSLP 120 AAELDSGSDS GSGSGSGCSP YSEPRREFAS GSSNSRAEYE TMGSAGYEQP PPRSSVMVRR 180 AVACIEAQLG EPLRDDGPTL GMEFDPLPPG AFGTPIAMQT HQGHPYESKI YEPLDVRPRR 240 SQAATSAFHE QQSLNDPSSF TPDMYGRYSE SHSRGVDYEI SRPRSSSFMQ GNGPLPKSYG 300 NSSRNCSTSQ QDMPSPILPS ARGDSFLLER DSSGLRAEDP YLLSDGVRMS NDVHRKGKIN 360 DGRLGRGSGQ KDLEKLELQR KRNEERMRKE MERYERERRK EEERLMRERI KEEERLQREQ 420 RREMERREKF LQRENERAEK NKQKEEIRRE KEAIRRKIAV EKATARRIAK EAMDLIEDEQ 480 LELMDLAASS KGLSSVIQLD HDTLQNLDLY RDSLSTFPPK ALQLKMPFTI SPWKDSKENV 540 GNLLMVWRFL ISFSDVLDLW PFTLDEFIQA LHEYDSRLLG EIHITLLRSI IRDIEDVART 600 PYSGIGNNQY TTANPEGGHP QIVEGAYAWG FDIRSWKKHL NPLTWPEILR QLGLSSGFGP 660 RLKKSNSRVT HTGEKDEAKG CEDIISTLRS GSAAESAFAS MLEKGLLAPR KSRHRLTPGT 720 VKFAAFHVLS LEGSKGLTVI ELADKIQKSG LRDLRTSKTP EASISVALTR DVKLFERIAP 780 STYCVRAPYV KDPADGEAIL AEARKKIKAF ENGLAGPEDV NDLEKDEDFE CDIDEDPEVD 840 DLATLPSASK SADLGDANGL SEKGGEIMFS DVKADVKSEV EKGVSSPPTS SMKSIVPQCH 900 SEQRKDNAVV EDSKQGKSWV LGLTEGEYCH LSVEERLEAL VALVGIANEG NSIRASLEDR 960 LEAANSLKKQ MWAEAQLDNS CMRDVLKFDI QNSTREINSF NRDPSQLVDE TKPPLEVVSN 1020 DVHKLSTERG SVNQEGNISQ ENFSSKRSRS QLKSYISHKA EEVYPYRSLP LGQDRRHNRY 1080 WHFAASASKS DPCSGLIFVE LHDSKWRLID SAEAFDTLVA SLDMRGVRES HLRIMLQKIE 1140 GAFKENASKN INLARNPSLK EDSVSPSSAI LGLSSDSMGA STSIRVELGR DDKEKENFLK 1200 RFHAFQRWMW TETYSSVPSC ARKDGKKRCE LLATCEVCIA SYLSEYTHCT SCHQRLDMAD 1260 GSERKIVDSG LTASPLPFGV RLLKALLVFL EASVPDEAFE SFWTEEKRKN WGLKLNASSS 1320 PEELSQVLTY LESAIKKESL SSNFLSAKEL LGAAGADDQE SMDVFPWIPK TVSAVALRLS 1380 DLDASIVYVK PEKPEPVPED ENEQISLFPG NSLLKGKGPK EQEDQDEVVP NSGKKSNKRR 1440 VIFGSGSNKK AKKKKVQGGN GRFVAGRSNV AASRNIMSVE LNHQVPGRGK RTVRKRPERN 1500 DEDNYRLVSR MADIVKPTSE EDEEEEEEQT FRGIDEDWAG ETPREMDEEW ASETPNRVMT 1560 PMQVDGESDD NSVGVQSEDD DDDEGQFVSY SQRNKWGFDW NSNPNEAMED VEEEVAGVEQ 1620 VQREYVAEMS ESSEDDDVPA ANNNAAANNY DRESEDYSSS DS

Sequence ? help Back to Top

Protein Sequence Length: 1662 aa Download sequence Send to blast

MESDGEENQM RSVADSNHKN KKMKKVVDAS NSKDSPSSKP KRQMKTPFQL QTLEQVYSEE  60
TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQVK KTPKPAPVQP ASAVPALSLP  120
AAELDSGSDS GSGSGSGCSP YSEPRREFAS GSSNSRAEYE TMGSAGYEQP PPRSSVMVRR  180
AVACIEAQLG EPLRDDGPTL GMEFDPLPPG AFGTPIAMQT HQGHPYESKI YEPLDVRPRR  240
SQAATSAFHE QQSLNDPSSF TPDMYGRYSE SHSRGVDYEI SRPRSSSFMQ GNGPLPKSYG  300
NSSRNCSTSQ QDMPSPILPS ARGDSFLLER DSSGLRAEDP YLLSDGVRMS NDVHRKGKIN  360
DGRLGRGSGQ KDLEKLELQR KRNEERMRKE MERYERERRK EEERLMRERI KEEERLQREQ  420
RREMERREKF LQRENERAEK NKQKEEIRRE KEAIRRKIAV EKATARRIAK EAMDLIEDEQ  480
LELMDLAASS KGLSSVIQLD HDTLQNLDLY RDSLSTFPPK ALQLKMPFTI SPWKDSKENV  540
GNLLMVWRFL ISFSDVLDLW PFTLDEFIQA LHEYDSRLLG EIHITLLRSI IRDIEDVART  600
PYSGIGNNQY TTANPEGGHP QIVEGAYAWG FDIRSWKKHL NPLTWPEILR QLGLSSGFGP  660
RLKKSNSRVT HTGEKDEAKG CEDIISTLRS GSAAESAFAS MLEKGLLAPR KSRHRLTPGT  720
VKFAAFHVLS LEGSKGLTVI ELADKIQKSG LRDLRTSKTP EASISVALTR DVKLFERIAP  780
STYCVRAPYV KDPADGEAIL AEARKKIKAF ENGLAGPEDV NDLEKDEDFE CDIDEDPEVD  840
DLATLPSASK SADLGDANGL SEKGGEIMFS DVKADVKSEV EKGVSSPPTS SMKSIVPQCH  900
SEQRKDNAVV EDSKQGKSWV LGLTEGEYCH LSVEERLEAL VALVGIANEG NSIRASLEDR  960
LEAANSLKKQ MWAEAQLDNS CMRDVLKFDI QNSTREINSF NRDPSQLVDE TKPPLEVVSN  1020
DVHKLSTERG SVNQEGNISQ ENFSSKRSRS QLKSYISHKA EEVYPYRSLP LGQDRRHNRY  1080
WHFAASASKS DPCSGLIFVE LHDSKWRLID SAEAFDTLVA SLDMRGVRES HLRIMLQKIE  1140
GAFKENASKN INLARNPSLK EDSVSPSSAI LGLSSDSMGA STSIRVELGR DDKEKENFLK  1200
RFHAFQRWMW TETYSSVPSC ARKDGKKRCE LLATCEVCIA SYLSEYTHCT SCHQRLDMAD  1260
GSERKIVDSG LTASPLPFGV RLLKALLVFL EASVPDEAFE SFWTEEKRKN WGLKLNASSS  1320
PEELSQVLTY LESAIKKESL SSNFLSAKEL LGAAGADDQE SMDVFPWIPK TVSAVALRLS  1380
DLDASIVYVK PEKPEPVPED ENEQISLFPG NSLLKGKGPK EQEDQDEVVP NSGKKSNKRR  1440
VIFGSGSNKK AKKKKVQGGN GRFVAGRSNV AASRNIMSVE LNHQVPGRGK RTVRKRPERN  1500
DEDNYRLVSR MADIVKPTSE EDEEEEEEQT FRGIDEDWAG ETPREMDEEW ASETPNRVMT  1560
PMQVDGESDD NSVGVQSEDD DDDEGQFVSY SQRNKWGFDW NSNPNEAMED VEEEVAGVEQ  1620
VQREYVAEMS ESSEDDDVPA ANNNAAANNY DRESEDYSSS DS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	88	95	RRLKDKKD
2	1437	1454	KRRVIFGSGSNKKAKKKK

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	XP_009113662.1

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_009113662.1	0.0	PREDICTED: homeobox-DDT domain protein RLT1-like isoform X1
Swissprot	F4HY56	0.0	RLT1_ARATH; Homeobox-DDT domain protein RLT1
TrEMBL	M4EVS5	0.0	M4EVS5_BRARP; Uncharacterized protein
STRING	Bra032908.1-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