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

GSBRNA2T00110242001

Common Name

GSBRNA2T00110242001

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: 674aa MW: 74578.6 Da PI: 7.0539

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00110242001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.3	6.3e-19	42	95	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k +++t++q++eLe++F+ +++p++++r eL +kl+L+ +q+k+WFqNrR+++k GSBRNA2T00110242001 42 KYRRHTSYQIQELESFFKVCPHPNEKQRLELGSKLSLESKQIKFWFQNRRTQMK 95 56789**********************************************999 PP
2	START	170.2	1.3e-53	207	416	3	205
HHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECTT CS START 3 aeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetla....kaetlevissg 88 a a++el+++a+++ p+W+k s + + ++++ + + +r++g+v ++ +lve+l+d++ +W e+++ a+t+evis+g GSBRNA2T00110242001 207 AAVAMDELIRLAEVDNPLWTKCS--KSERDSMKHDQYTSI-FAGSSRETGLVLINSSTLVETLMDTN-RWAEMFEsivaVASTVEVISNG 292 56689****************..666666666655444.5567******************.******9******* PP ......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE CS START 89 ......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvd 171 gal lm+ae+q++splvp R + f+Ry++q+g+g w++vdvS d++++ + +s+ ++lpSg++i++ +ng skvtw+eh + GSBRNA2T00110242001 293 sggsrnGALLLMQAEFQVMSPLVPiRQVKFLRYCKQHGDGLWAVVDVSYDVNRESQDLKSYGGLKRLPSGCIIQDIGNGCSKVTWIEHSE 382 **************************************************99999*************************** PP --SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS START 172 lkgrlphwllrslvksglaegaktwvatlqrqce 205 ++g+++h l+++l++s++ ga +w+atlqr ce GSBRNA2T00110242001 383 YEGSHIHPLYQQLLGSSVGLGATKWLATLQRRCE 416 *******************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	2.84E-18	22	97	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.3E-19	25	97	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.406	37	97	IPR001356	Homeobox domain
SMART	SM00389	2.7E-15	39	101	IPR001356	Homeobox domain
CDD	cd00086	1.62E-15	42	97	No hit	No description
Pfam	PF00046	1.2E-16	42	95	IPR001356	Homeobox domain
PROSITE profile	PS50848	43.912	196	420	IPR002913	START domain
SuperFamily	SSF55961	1.43E-31	200	418	No hit	No description
CDD	cd08875	1.87E-100	201	416	No hit	No description
SMART	SM00234	4.0E-40	205	417	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	1.1E-4	205	400	IPR023393	START-like domain
Pfam	PF01852	2.1E-47	207	417	IPR002913	START domain
SuperFamily	SSF55961	7.58E-19	443	666	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 674 aa Download sequence Send to blast
MNGDFDISKG DDEFESDSFE AMSGDDDDKH EQRPKKKKKM SKYRRHTSYQ IQELESFFKV 60 CPHPNEKQRL ELGSKLSLES KQIKFWFQNR RTQMKTQLER HENAILRQEN EKLRVENGIL 120 KEAMRSPPTC NNCGGAATPG EVSHEQQQLR MENAKLKYEL DKLCALSNRF IGGSISLEQP 180 SNGGVGSQDL SLGHGFTRGT STFMDIAAVA MDELIRLAEV DNPLWTKCSK SERDSMKHDQ 240 YTSIFAGSSR ETGLVLINSS TLVETLMDTN RWAEMFESIV AVASTVEVIS NGSGGSRNGA 300 LLLMQAEFQV MSPLVPIRQV KFLRYCKQHG DGLWAVVDVS YDVNRESQDL KSYGGLKRLP 360 SGCIIQDIGN GCSKVTWIEH SEYEGSHIHP LYQQLLGSSV GLGATKWLAT LQRRCESYTT 420 LLSSQDQTGL PLAGTKSTLT LAQRMKRNFY SGITGSPIHK WEKLVAENVG QETRILTRKS 480 LQPSGVVLSA ATSMWLPVTQ QRLFEFLCDS KCRNQWDILC NGASMENMLL IPQRQSEGRC 540 VSLLQHAGKH QNESSMLILQ ETWSDASGAL VVYAPVDVPS MNMVMSGGDS ANVALLPSGF 600 SISPDGSSSW SDQIDKNGGL VNHESKGCLL TVGFQILVNS VPTTKLNMES VQTVNNLIAC 660 TIHKIKAALS IPA*

Sequence ? help Back to Top

Protein Sequence Length: 674 aa Download sequence Send to blast

MNGDFDISKG DDEFESDSFE AMSGDDDDKH EQRPKKKKKM SKYRRHTSYQ IQELESFFKV  60
CPHPNEKQRL ELGSKLSLES KQIKFWFQNR RTQMKTQLER HENAILRQEN EKLRVENGIL  120
KEAMRSPPTC NNCGGAATPG EVSHEQQQLR MENAKLKYEL DKLCALSNRF IGGSISLEQP  180
SNGGVGSQDL SLGHGFTRGT STFMDIAAVA MDELIRLAEV DNPLWTKCSK SERDSMKHDQ  240
YTSIFAGSSR ETGLVLINSS TLVETLMDTN RWAEMFESIV AVASTVEVIS NGSGGSRNGA  300
LLLMQAEFQV MSPLVPIRQV KFLRYCKQHG DGLWAVVDVS YDVNRESQDL KSYGGLKRLP  360
SGCIIQDIGN GCSKVTWIEH SEYEGSHIHP LYQQLLGSSV GLGATKWLAT LQRRCESYTT  420
LLSSQDQTGL PLAGTKSTLT LAQRMKRNFY SGITGSPIHK WEKLVAENVG QETRILTRKS  480
LQPSGVVLSA ATSMWLPVTQ QRLFEFLCDS KCRNQWDILC NGASMENMLL IPQRQSEGRC  540
VSLLQHAGKH QNESSMLILQ ETWSDASGAL VVYAPVDVPS MNMVMSGGDS ANVALLPSGF  600
SISPDGSSSW SDQIDKNGGL VNHESKGCLL TVGFQILVNS VPTTKLNMES VQTVNNLIAC  660
TIHKIKAALS IPA*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in cells around the base of leaf primordia, in the outermost 2 to 3 cell layers along the boundary between two leaf primordia. Expressed in lateral root primordia and tips, and in the epidermal boundaries of two cotyledons at heart-stage embryo. {ECO:0000269\|PubMed:16778018}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that binds to the DNA sequence 5'-GCATTAAATGC-3'. {ECO:0000269\|PubMed:16778018}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00559	DAP	Transfer from AT5G52170	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00110242001

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB025603	1e-105	AB025603.1 Arabidopsis thaliana genomic DNA, chromosome 5, BAC clone:F17P19.
GenBank	CP002688	1e-105	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013686466.1	0.0	homeobox-leucine zipper protein HDG7-like
Swissprot	Q9LTK3	0.0	HDG7_ARATH; Homeobox-leucine zipper protein HDG7
TrEMBL	A0A3P6CY22	0.0	A0A3P6CY22_BRACM; Uncharacterized protein
STRING	Bra028295.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1128	27	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G52170.1	0.0	homeodomain GLABROUS 7

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] 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]