PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00113748001
Common NameGSBRNA2T00113748001, LOC106367270
Organism
Brassica napus
Taxonomic ID
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: 841aa    MW: 92130.6 Da    PI: 6.4587
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00113748001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.98.6e-192078357
                         --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
             Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                         k  ++t+eq+e+Le++++++++ps  +r++L +++    +++ rq+kvWFqNrR +ek+
  GSBRNA2T00113748001 20 KYVRYTPEQVEALERVYAECPKPSSLRRQQLIRECpilcNIEPRQIKVWFQNRRCREKQ 78
                         5678*****************************************************97 PP
2START173.31.5e-541693772205
                          HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..E CS
                START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..g 89 
                          +aee+++e++ ka+ ++  Wv++  +++g++++ +++ s+++sg a+ra+g+v  +++  v+e+l+d++ W ++++++etl vi +g  g
  GSBRNA2T00113748001 169 IAEETLAEFLCKATGTAVDWVQMIGMKPGPDSIGIVAVSRNCSGIAARACGLVSLEPM-KVAEILKDRPSWFRDCRSVETLSVIPTGngG 257
                          7899******************************************************.8888888888********************* PP

                          EEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SS CS
                START  90 alqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgr 175
                          +++l++++ +a+++l++ Rdf+++Ry+ +l++g++v+++ S++  +  p+   sss+vRa++l Sg+li+p+++g+s +++v+hvdl+ +
  GSBRNA2T00113748001 258 TIELINTQIYAPTTLAAaRDFWTLRYSTSLEDGSYVVCEKSLTAATGGPNgplSSSFVRAKMLSSGFLIRPCDGGGSIIHIVDHVDLDVS 347
                          *************************************************99*************************************** PP

                          XXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
                START 176 lphwllrslvksglaegaktwvatlqrqce 205
                          +++++lr+l++s+ + ++k++va+l++ ++
  GSBRNA2T00113748001 348 SVPEVLRPLYESSKILAQKMTVAALRHVRQ 377
                          *************************98765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.607.7E-19478IPR009057Homeodomain-like
PROSITE profilePS5007115.4511579IPR001356Homeobox domain
SMARTSM003894.2E-161783IPR001356Homeobox domain
SuperFamilySSF466891.24E-161981IPR009057Homeodomain-like
CDDcd000865.82E-172080No hitNo description
PfamPF000462.2E-162178IPR001356Homeobox domain
CDDcd146863.21E-672111No hitNo description
PROSITE profilePS5084825.486159387IPR002913START domain
CDDcd088751.80E-70163379No hitNo description
SMARTSM002342.1E-52168378IPR002913START domain
SuperFamilySSF559611.24E-34168380No hitNo description
PfamPF018527.7E-52169377IPR002913START domain
Gene3DG3DSA:3.30.530.205.7E-19204373IPR023393START-like domain
PfamPF086701.7E-48693839IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009880Biological Processembryonic pattern specification
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010072Biological Processprimary shoot apical meristem specification
GO:0080060Biological Processintegument development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 841 aa     Download sequence    Send to blast
MMAHSMDDRD SPEKGFDSGK YVRYTPEQVE ALERVYAECP KPSSLRRQQL IRECPILCNI  60
EPRQIKVWFQ NRRCREKQRK ESARLQTVNR KLSAMNKLLM EENDRLQKQV SHLVYENGFM  120
KHRINTATGT TTDNGCESVV VSGQQRQQQN PTHQHPQRDA NNPAGLLSIA EETLAEFLCK  180
ATGTAVDWVQ MIGMKPGPDS IGIVAVSRNC SGIAARACGL VSLEPMKVAE ILKDRPSWFR  240
DCRSVETLSV IPTGNGGTIE LINTQIYAPT TLAAARDFWT LRYSTSLEDG SYVVCEKSLT  300
AATGGPNGPL SSSFVRAKML SSGFLIRPCD GGGSIIHIVD HVDLDVSSVP EVLRPLYESS  360
KILAQKMTVA ALRHVRQIAQ ETSGEVQFSG GRQPAVLRTF SQRLCRGFND AVNGFADDGW  420
SPMSSDGGED ITIMINSSSS KFAGSQYGNS FLPSFGSGVL CAKASMLLQN VPPLVLIRFL  480
REHRAEWADY GVDAYCAASL RATPFAVPCV RTGGFPSNQV ILPLAQTLEH EEFLEVVRLG  540
GHAYSPEDMG LSRDMYLLQL CSGVDENVVG GCAQLVFAPI DESFADDAPL LPSGFRVIPL  600
DHKTSPSDHL SVNRTRDLAS SLDGSTKTDA ETNSRLVLTI AFQFTFDNHS RDNVATMARQ  660
YVRNVVGSIQ RVALAITPRP GSMQFPTSPE ALTLARWISR SYSLHTGANM FGADTQGCDG  720
DTLLKQLWNH SDAILCCSLK TNASPVFTFA NQAGLDMLET TLVALQDIML DKTLDDSGRK  780
ALCSEFAKIM QQGYANLPAG ICVSSMGRPV SYEQATVWKV LDDSESNHCL AFILVNWSFV  840
*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.18250.0seed
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. Binds to the DNA sequence 5'-GTAAT[GC]ATTAC-3'. {ECO:0000269|PubMed:11395776, ECO:0000269|PubMed:15598805, ECO:0000269|PubMed:17900520, ECO:0000269|PubMed:9747806}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00170DAPTransfer from AT1G30490Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00113748001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by miR165 and miR166. {ECO:0000269|PubMed:14999284, ECO:0000269|PubMed:16033795, ECO:0000269|PubMed:17237362}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3532580.0AK353258.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-39-H09.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013662459.10.0homeobox-leucine zipper protein ATHB-9
SwissprotO042920.0ATBH9_ARATH; Homeobox-leucine zipper protein ATHB-9
TrEMBLM4EUB20.0M4EUB2_BRARP; Uncharacterized protein
STRINGBra032394.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM42562653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30490.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. 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]
  2. Jia X, et al.
    Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic.
    Plant Sci., 2015. 233: p. 11-21
    [PMID:25711809]
  3. Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS
    CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules.
    Development, 2016. 143(3): p. 422-6
    [PMID:26700684]
  4. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]