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 Rsa1.0_01190.1_g00006.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family HD-ZIP
Protein Properties Length: 840aa    MW: 92064.5 Da    PI: 6.4082
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01190.1_g00006.1genomeRGDView 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+
  Rsa1.0_01190.1_g00006.1 20 KYVRYTPEQVEALERVYAECPKPSSLRRQQLIRECpilcNIEPRQIKVWFQNRRCREKQ 78
                             5678*****************************************************97 PP
2START170.21.4e-531693772205
                              HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECT CS
                    START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetleviss 87 
                              +aee+++e++ ka+ ++  Wv++  +++g++++ +++ s+++sg a+ra+g+v  +++  v+e+l+d++ W ++++++etl vi +
  Rsa1.0_01190.1_g00006.1 169 IAEETLAEFLCKATGTAVDWVQMIGMKPGPDSIGIVAVSRNCSGIAARACGLVSLEPM-KVAEILKDRPSWFRDCRSVETLSVIPT 253
                              7899******************************************************.8888888888***************** PP

                              T..EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEE CS
                    START  88 g..galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwv 167
                              g  g+++l +++ +a+++l++ Rdf+++Ry+ +l++g++v+++ S++  +  p+   sss+vRa++l Sg+li+p+++g+s +++v
  Rsa1.0_01190.1_g00006.1 254 GngGTIELVNTQIYAPTTLAAaRDFWTLRYSTSLEDGSFVVCEKSLTAATGGPNgplSSSFVRAKMLSSGFLIRPCDGGGSIIHIV 339
                              *****************************************************99******************************* PP

                              E-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
                    START 168 ehvdlkgrlphwllrslvksglaegaktwvatlqrqce 205
                              +hvdl+ ++++++lr+l++s+ + ++k++va+l++ ++
  Rsa1.0_01190.1_g00006.1 340 DHVDLDVSSVPEVLRPLYESSKILAQKMTVAALRHVRQ 377
                              *********************************98765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.4511579IPR001356Homeobox domain
SMARTSM003894.2E-161783IPR001356Homeobox domain
SuperFamilySSF466891.41E-161981IPR009057Homeodomain-like
CDDcd000865.82E-172080No hitNo description
PfamPF000462.5E-162178IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.608.0E-192278IPR009057Homeodomain-like
CDDcd146863.21E-672111No hitNo description
PROSITE profilePS5084824.873159387IPR002913START domain
CDDcd088751.83E-70163379No hitNo description
SMARTSM002341.1E-50168378IPR002913START domain
SuperFamilySSF559613.16E-34168380No hitNo description
PfamPF018527.9E-51169377IPR002913START domain
Gene3DG3DSA:3.30.530.208.6E-19204373IPR023393START-like domain
PfamPF086705.3E-49693839IPR013978MEKHLA
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:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 840 aa     Download sequence    Send to blast
MMAHSMDDRD SPDKGFDSGK YVRYTPEQVE ALERVYAECP KPSSLRRQQL IRECPILCNI  60
EPRQIKVWFQ NRRCREKQRK ESARLQTVNR KLSAMNKLLM EENDRLQKQV SHLVYENGFM  120
KHRINTATGT TTDNGCESVV VSGQQRQQQN PTHQHPQRDA SNPAGLLSIA EETLAEFLCK  180
ATGTAVDWVQ MIGMKPGPDS IGIVAVSRNC SGIAARACGL VSLEPMKVAE ILKDRPSWFR  240
DCRSVETLSV IPTGNGGTIE LVNTQIYAPT TLAAARDFWT LRYSTSLEDG SFVVCEKSLT  300
AATGGPNGPL SSSFVRAKML SSGFLIRPCD GGGSIIHIVD HVDLDVSSVP EVLRPLYESS  360
KILAQKMTVA ALRHVRQIAQ ENSGEVQFSG GRQPAVLRTF SQRLCRGFND AVNGFGDDGW  420
SPMSSDGGED ITIMINSSSS KFAGSQYGNS FLPSFGSGVL CAKASMLLQN VPPLALIRFL  480
REHRAEWADY GVDAYCAASL RATPFSVPCV RTGGFPSNQV ILPLAQTLEH EEFLEVVRLG  540
GHAYSPEDMG LSRDMYLLQL CSGVDENVVG GCAQLVFAPI DESFADDAPL LPSGFRVIPL  600
DQKTSPSDHI SVNRTRDLAS SLDGSSKTDA ETNSRLVLTI AFQFTFDNHS RDNVATMARQ  660
YVRNVVGSIQ RVALAITPRP GSMQFPTSPE ALTLARWISR SYSIHTGANL FGADTQGCDG  720
DTLLKQLWNH SDAILCCSLK TNASPVFTFA NQAGLDMLET TLVALQDIML DKTLDDSGRK  780
ALCSEFAKIM QQGYANLPAG ICVSSMGRPV SYEQATVWKV LDDNESNHCL AFILMNWSFV
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
PlantRegMapRsa1.0_01190.1_g00006.1
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_018488876.10.0PREDICTED: homeobox-leucine zipper protein ATHB-9
RefseqXP_018488887.10.0PREDICTED: homeobox-leucine zipper protein ATHB-9
SwissprotO042920.0ATBH9_ARATH; Homeobox-leucine zipper protein ATHB-9
TrEMBLA0A3P5YJD60.0A0A3P5YJD6_BRACM; 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. 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]
  2. 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]
  3. 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]