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

GSBRNA2T00089143001

Common Name

GSBRNA2T00089143001

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: 705aa MW: 78609.8 Da PI: 5.7756

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00089143001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.7	4.7e-19	61	116	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 r++ +++t++q++e+e++F+++++p+ ++r+eL+++lgL+ q+k+WFqN+R++ k GSBRNA2T00089143001 61 RKRYHRHTQQQIQEMENFFKECPHPDDNQRKELSRQLGLDHLQIKFWFQNKRTQNK 116 789999***********************************************998 PP
2	START	158.6	5e-50	233	451	2	206
HHHHHHHHHHHHHHHC-TT-EEEE..EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEE CS START 2 laeeaaqelvkkalaeepgWvkss..esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kae 80 la a+ el+++a+ +ep+W++ + +++ e++++++ + + +++ea+r++++v+m +++ v l+d++ W++++a +a GSBRNA2T00089143001 233 LAVGAMSELIALAQMNEPLWKEGVhgMILDLNEYTRNLQNGLGpkpvgFRTEASRETAIVFMRHMEIVHRLMDVN-LWSTMFAgmvgRAI 321 67889*****************9999999999999966555999*************************.***9999999 PP EEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEE CS START 81 tlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghsk 163 t++++ +g g+++lm+ae+q+lsplv+ R+ +fvRy++q+g+g w +vd+S+d+ ++ ++++ R +pSg+li++++n+ s+ GSBRNA2T00089143001 322 THDTLLTGrqgnldGTIHLMTAEFQVLSPLVSnRECYFVRYCKQHGEGLWGVVDISIDHLIPNL-EPKCLR---RPSGCLIQDMPNRVSR 407 99999999**************************************************98.788888...************ PP EEEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 164 vtwvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206 vtwvehv++++ h+++++l++sg+a ga++w+++l+rqce+ GSBRNA2T00089143001 408 VTWVEHVEVDDGGElHAMFKHLLNSGQALGANRWLSALDRQCER 451 *****988878*************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	4.6E-20	43	116	IPR009057	Homeodomain-like
SuperFamily	SSF46689	5.01E-18	51	119	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.455	58	118	IPR001356	Homeobox domain
SMART	SM00389	4.1E-17	59	122	IPR001356	Homeobox domain
CDD	cd00086	8.21E-18	60	119	No hit	No description
Pfam	PF00046	1.1E-16	61	116	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	93	116	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	33.596	223	454	IPR002913	START domain
SuperFamily	SSF55961	5.89E-28	225	452	No hit	No description
CDD	cd08875	1.32E-94	227	450	No hit	No description
SMART	SM00234	8.9E-43	232	451	IPR002913	START domain
Pfam	PF01852	7.8E-41	233	451	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	1.2E-4	334	436	IPR023393	START-like domain
SuperFamily	SSF55961	1.06E-13	497	685	No hit	No description

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:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 705 aa Download sequence Send to blast
MSLPNYMEPV DDVNNNNNGE TDNNENENNN NMNGGASFGD EEFDSENQED GNTQNPRAGK 60 RKRYHRHTQQ QIQEMENFFK ECPHPDDNQR KELSRQLGLD HLQIKFWFQN KRTQNKNHQE 120 RHENLQLREE NTRLRADNHH FREGLANASC PNCGGPTAVG EMSFEEHHLL LENAKLTEEI 180 RQLSEVAKYT GKAVMRYPVL PTPNQAPPFE PPMITNGSLG SVKEADKPLL IELAVGAMSE 240 LIALAQMNEP LWKEGVHGMI LDLNEYTRNL QNGLGPKPVG FRTEASRETA IVFMRHMEIV 300 HRLMDVNLWS TMFAGMVGRA ITHDTLLTGR QGNLDGTIHL MTAEFQVLSP LVSNRECYFV 360 RYCKQHGEGL WGVVDISIDH LIPNLEPKCL RRPSGCLIQD MPNRVSRVTW VEHVEVDDGG 420 ELHAMFKHLL NSGQALGANR WLSALDRQCE RLAIMMAPNI PSIEPGGQIT VTNNAKQSLL 480 ELVERMSRGF FDGVTTSNAD IWMNLGGYTG DSVKVTTRTS LNDPGRPEGL ILCAAHSFWV 540 PAPPTTVFDY LRDENNRVNW DVLFLGGNPQ KLTHIFNGRD NRNCVSLLRS PNTSQSEMMM 600 IEKSSTEPAA SFLVYAPVDI PSMEKVLNGG DPKYVPLLPS GFAILPDGTA QPGKAGGSLV 660 NVAFQMLVDS YPSGSLTFSS VSTIESLILA AANKIKACFT QQTP*

Sequence ? help Back to Top

Protein Sequence Length: 705 aa Download sequence Send to blast

MSLPNYMEPV DDVNNNNNGE TDNNENENNN NMNGGASFGD EEFDSENQED GNTQNPRAGK  60
RKRYHRHTQQ QIQEMENFFK ECPHPDDNQR KELSRQLGLD HLQIKFWFQN KRTQNKNHQE  120
RHENLQLREE NTRLRADNHH FREGLANASC PNCGGPTAVG EMSFEEHHLL LENAKLTEEI  180
RQLSEVAKYT GKAVMRYPVL PTPNQAPPFE PPMITNGSLG SVKEADKPLL IELAVGAMSE  240
LIALAQMNEP LWKEGVHGMI LDLNEYTRNL QNGLGPKPVG FRTEASRETA IVFMRHMEIV  300
HRLMDVNLWS TMFAGMVGRA ITHDTLLTGR QGNLDGTIHL MTAEFQVLSP LVSNRECYFV  360
RYCKQHGEGL WGVVDISIDH LIPNLEPKCL RRPSGCLIQD MPNRVSRVTW VEHVEVDDGG  420
ELHAMFKHLL NSGQALGANR WLSALDRQCE RLAIMMAPNI PSIEPGGQIT VTNNAKQSLL  480
ELVERMSRGF FDGVTTSNAD IWMNLGGYTG DSVKVTTRTS LNDPGRPEGL ILCAAHSFWV  540
PAPPTTVFDY LRDENNRVNW DVLFLGGNPQ KLTHIFNGRD NRNCVSLLRS PNTSQSEMMM  600
IEKSSTEPAA SFLVYAPVDI PSMEKVLNGG DPKYVPLLPS GFAILPDGTA QPGKAGGSLV  660
NVAFQMLVDS YPSGSLTFSS VSTIESLILA AANKIKACFT QQTP*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in hairless cell files of the hypocotyl epidermis. Expressed in shoot apical meristem (SAM) with higher levels in L1 cells and the epidermal layer of young leaves. Expressed in primary root tips, in the L1 of apical inflorescence meristems, early flower primordia, carpel epidermis, ovule primordia, nucellus, chalaze and seed coat. {ECO:0000269\|PubMed:16778018}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00089143001

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_009143974.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG2 isoform X1
Refseq	XP_009143975.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG2 isoform X2
Refseq	XP_009143977.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG2 isoform X2
Swissprot	Q94C37	0.0	HDG2_ARATH; Homeobox-leucine zipper protein HDG2
TrEMBL	A0A078IE00	0.0	A0A078IE00_BRANA; BnaA05g10820D protein
STRING	Bra005588.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM491	28	149

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G05230.3	0.0	homeodomain GLABROUS 2

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]