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

GSBRNA2T00114865001

Common Name

GSBRNA2T00114865001

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: 740aa MW: 83375.5 Da PI: 6.538

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00114865001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	55.6	9.2e-18	28	79	5	56
SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 ++++ +q+++Le++F+++++p+ +r +L ++l+L+ +q+k+WFqN+R++ k GSBRNA2T00114865001 28 HRHSIHQIQRLEAYFKECPHPDDMQRHKLGEELKLKPKQIKFWFQNKRTQAK 79 56788********************************************988 PP
2	START	127.8	1.3e-40	224	442	4	206
HHHHHHHHHHHHHC-TT-EEEE.......EXCCTTEEEEEEESSS...SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEE CS START 4 eeaaqelvkkalaeepgWvkss.......esengdevlqkfeeskv..dsgealrasgvvdmvlallveellddkeqWdetla....kae 80 a +e ++++ eep+W kss ++en++++ ++++ k+ ++e +++++vv+m++ +lv ++d+ +W + + +a+ GSBRNA2T00114865001 224 VNAVTEIIRLIHIEEPMWIKSSiddrlviDQENYEKSFTNISHLKSpsARIESSKEVVVVPMDARNLVDMFFDTE-KWARIFStivnEAK 312 6788999********************************88888999**********************.999999999999 PP EEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEE CS START 81 tlevissg.....galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskv 164 t+ v++s ++ ql++ +l lsplvp R+f+++R+++q +++ wvi+d+S + + e + + ++pSg+li+ ++ng skv GSBRNA2T00114865001 313 TIHVLESMdtqrqNFSQLIYEQLHILSPLVPpREFMILRCCQQIEDDLWVIADISCHHVNIDFE---SPTCSKRPSGCLIQALPNGLSKV 399 99998887788****************************************99999988764...666889************* PP EEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 165 twvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206 tw+ehv++++++ h ++r l+ g ga++w+ tl+r ce+ GSBRNA2T00114865001 400 TWMEHVEVNEKVRtHRIYRDLLCGGFGYGARRWTVTLERMCER 442 ********99*************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	5.56E-16	7	81	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.6E-17	16	83	IPR009057	Homeodomain-like
PROSITE profile	PS50071	14.965	21	81	IPR001356	Homeobox domain
SMART	SM00389	1.1E-14	23	85	IPR001356	Homeobox domain
CDD	cd00086	1.08E-14	28	82	No hit	No description
Pfam	PF00046	3.0E-15	29	79	IPR001356	Homeobox domain
PROSITE profile	PS50848	39.036	212	445	IPR002913	START domain
SuperFamily	SSF55961	3.16E-28	213	443	No hit	No description
CDD	cd08875	4.82E-91	216	441	No hit	No description
SMART	SM00234	1.5E-25	221	442	IPR002913	START domain
Pfam	PF01852	8.3E-34	224	442	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	2.6E-9	263	408	IPR023393	START-like domain
SuperFamily	SSF55961	3.3E-10	465	669	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: 740 aa Download sequence Send to blast
MDSNHDSSSS YGLETSMSTT NGDNKIYHRH SIHQIQRLEA YFKECPHPDD MQRHKLGEEL 60 KLKPKQIKFW FQNKRTQAKA QSEKVFNASL RAENIRIRRE NEVIQEALKT VTCPPCGGPR 120 PGKEERELYL QKMRAHNAYL KRQLEQISDF VNNNGGHSIP SVNSLASTSS NPHVSYGTSS 180 NPPLEPPSLE REPYTHEHIN NAQPPQHFQP LSQMEKMMMS QTMVNAVTEI IRLIHIEEPM 240 WIKSSIDDRL VIDQENYEKS FTNISHLKSP SARIESSKEV VVVPMDARNL VDMFFDTEKW 300 ARIFSTIVNE AKTIHVLESM DTQRQNFSQL IYEQLHILSP LVPPREFMIL RCCQQIEDDL 360 WVIADISCHH VNIDFESPTC SKRPSGCLIQ ALPNGLSKVT WMEHVEVNEK VRTHRIYRDL 420 LCGGFGYGAR RWTVTLERMC ERLHLSSISV FPTTDLAGVV KTIEGRRSLM NLGERMLKNF 480 AWILKMSGNY DFSQLSETNS SGVRVSVRVN SEAGQPTGLI VCAASSLCLP LSPLEVYNFL 540 TNLEIRHQWD VLCHGYPAAE VAGFATGTDD KNRVNILQTT STTEDADMMI IQDSFRDALG 600 GMVVYAPVDL NTASAAVSGQ VNPSGIPILP SGFIISRDGH HFTSPDLEDG SDYSTSLLTV 660 AFQILVSGPT LSGDLQIEES TTTVNTLITS TLQRIKVMLN CNEESPPHHR LDCSRRKTSR 720 NSAKTPPEQE CEEKPPKTI*

Sequence ? help Back to Top

Protein Sequence Length: 740 aa Download sequence Send to blast

MDSNHDSSSS YGLETSMSTT NGDNKIYHRH SIHQIQRLEA YFKECPHPDD MQRHKLGEEL  60
KLKPKQIKFW FQNKRTQAKA QSEKVFNASL RAENIRIRRE NEVIQEALKT VTCPPCGGPR  120
PGKEERELYL QKMRAHNAYL KRQLEQISDF VNNNGGHSIP SVNSLASTSS NPHVSYGTSS  180
NPPLEPPSLE REPYTHEHIN NAQPPQHFQP LSQMEKMMMS QTMVNAVTEI IRLIHIEEPM  240
WIKSSIDDRL VIDQENYEKS FTNISHLKSP SARIESSKEV VVVPMDARNL VDMFFDTEKW  300
ARIFSTIVNE AKTIHVLESM DTQRQNFSQL IYEQLHILSP LVPPREFMIL RCCQQIEDDL  360
WVIADISCHH VNIDFESPTC SKRPSGCLIQ ALPNGLSKVT WMEHVEVNEK VRTHRIYRDL  420
LCGGFGYGAR RWTVTLERMC ERLHLSSISV FPTTDLAGVV KTIEGRRSLM NLGERMLKNF  480
AWILKMSGNY DFSQLSETNS SGVRVSVRVN SEAGQPTGLI VCAASSLCLP LSPLEVYNFL  540
TNLEIRHQWD VLCHGYPAAE VAGFATGTDD KNRVNILQTT STTEDADMMI IQDSFRDALG  600
GMVVYAPVDL NTASAAVSGQ VNPSGIPILP SGFIISRDGH HFTSPDLEDG SDYSTSLLTV  660
AFQILVSGPT LSGDLQIEES TTTVNTLITS TLQRIKVMLN CNEESPPHHR LDCSRRKTSR  720
NSAKTPPEQE CEEKPPKTI*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in anthers with highest levels in the tapetum and pollen grains, and chalazal end of the embryo sac. {ECO:0000269\|PubMed:16778018}.

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00114865001

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	AC241023	6e-31	AC241023.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB039N20, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013619236.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG9-like
Refseq	XP_022551076.1	0.0	homeobox-leucine zipper protein HDG9-like isoform X1
Swissprot	Q9FFI0	0.0	HDG9_ARATH; Homeobox-leucine zipper protein HDG9
TrEMBL	A0A3P6DGH2	0.0	A0A3P6DGH2_BRAOL; Uncharacterized protein
STRING	Bo2g013570.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8468	15	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G17320.1	0.0	homeodomain GLABROUS 9

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]