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 GSBRNA2T00107329001
Common NameGSBRNA2T00107329001
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: 840aa    MW: 92234.2 Da    PI: 5.7542
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00107329001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox54.61.8e-172582457
                         -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
             Homeobox  4 RttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                           ++t eq+e+Le+++ ++++p+  +r++L +++    +++ +q+kvWFqNrR ++k+
  GSBRNA2T00107329001 25 YVRYTGEQVEALERVYSECPKPTSLRRQQLIRECpflaNIEPKQIKVWFQNRRCRDKQ 82
                         6789***************************************************996 PP
2bZIP_1201.5e-06761211863
                          HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
               bZIP_1  18 rrsRqRKkaeieeLeekvkeLeaeNkaLkkeleelkkevaklksev 63 
                          rr+R + ++e  +L+   ++L+a Nk L +e+++l+k+v+ l se+
  GSBRNA2T00107329001  76 RRCRDKQRKEASRLQSVNQKLSAMNKLLMEENDRLQKQVSHLVSEN 121
                          9***************************************998887 PP
3START156.42.3e-491633702204
                          HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..E CS
                START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..g 89 
                          +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s+ + g a+ra+g+v  ++++ ve+l d++  W ++++++e+      g  g
  GSBRNA2T00107329001 163 IAEETLAEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISQKCYGVAARACGLVSLEPMKIVEILKDRP-SWFRDCRSIEVFTMFPAGngG 251
                          68999*****************************************************9999999999.*************9999999* PP

                          EEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SS CS
                START  90 alqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgr 175
                          +++l++++++a+++l+p Rdf+++Ry+ +l++g+ v++++S++     p+    +++vRae+lpSg+li+p+++g+s +++v+h++ +g+
  GSBRNA2T00107329001 252 TIELIYMQTYAPTTLAPaRDFWTLRYTTSLEKGSIVVCERSLSGSGAGPNatsAAQFVRAEMLPSGYLIRPCDGGGSIIHIVDHINFEGW 341
                          *******************************************999999889999*********************************** PP

                          XXHHHHHHHHHHHHHHHHHHHHHHTXXXX CS
                START 176 lphwllrslvksglaegaktwvatlqrqc 204
                          +++ +lr l++s+ + +++++ a+l++ +
  GSBRNA2T00107329001 342 SVPDVLRLLYESSKVVAQRMTIAALRYVR 370
                          *************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.1431983IPR001356Homeobox domain
SMARTSM003891.4E-132187IPR001356Homeobox domain
SuperFamilySSF466896.42E-162186IPR009057Homeodomain-like
CDDcd000863.86E-152484No hitNo description
PfamPF000465.8E-152582IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.607.0E-182682IPR009057Homeodomain-like
CDDcd146862.04E-676115No hitNo description
PROSITE profilePS5084826.613153381IPR002913START domain
CDDcd088755.14E-69157371No hitNo description
Gene3DG3DSA:3.30.530.201.6E-19160353IPR023393START-like domain
SMARTSM002344.4E-40162372IPR002913START domain
PfamPF018525.8E-47163370IPR002913START domain
SuperFamilySSF559611.37E-33163370No hitNo description
PfamPF086702.2E-48691838IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 840 aa     Download sequence    Send to blast
MAVAVGNRHE SGENINRHLD SSGKYVRYTG EQVEALERVY SECPKPTSLR RQQLIRECPF  60
LANIEPKQIK VWFQNRRCRD KQRKEASRLQ SVNQKLSAMN KLLMEENDRL QKQVSHLVSE  120
NGYMQQQLTL TTLGTDASCD SVDPTPPLHP LRDANSPAGL MAIAEETLAE FLSKATGTAV  180
DWVQMPGMKP GPDSVGIFAI SQKCYGVAAR ACGLVSLEPM KIVEILKDRP SWFRDCRSIE  240
VFTMFPAGNG GTIELIYMQT YAPTTLAPAR DFWTLRYTTS LEKGSIVVCE RSLSGSGAGP  300
NATSAAQFVR AEMLPSGYLI RPCDGGGSII HIVDHINFEG WSVPDVLRLL YESSKVVAQR  360
MTIAALRYVR QVAHETNGEV VYGLGRQPAV LRTFSQRLSR GFSDAVNGFN DDGWSIMHCN  420
GAEDITVAVN STKHLNSFSD PLSFLGGVLC AKASMLLQNV CPAVLVRFLR EHRSEWADFN  480
VDAYSAATLK AGAFAYSGMR PTTFTGSQII MPLGNTIEKE EMLEVVRLEG HSLVPEDSFL  540
SRDVHLLQIC TGIDEDVVGA CSELVFAPVN EMFPDDAPLV PSGFRVIPVD SKTGDAQDLL  600
TANHRTLDLT SSQDVGSTPE TGSSPSSRCI LTIAFQFPFE NNLQENVANM ACQYVRSVIS  660
SVQRVAVALS PSGLIPIPGS KLSPGSPEAV SLAIWICQSY KQHFGSDLLR TDSLGGDALL  720
RQLWDHQDAI LCCSLKPQPV FMFANQAGLD MLETTLVALQ DIALEKIFDE SGRKALCPDF  780
AKLMQQGFAC LPSGMCVSTM GRHVSYEQAV SWKVFSDCED NNNNRIHCLA FLFANWSFL*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at the earliest stages and throughout LSM initiation and development. In embryo development, expressed at the heart stage until the 'walking stick' stage in the adaxial portion of the cotyledon primordia, the shoot apical meristem (SAM) and the vascular precursor cells of the hypocotyl and root. In developing flowers, expressed first at stage 1 in the center of L3 layer and then expands to the center of L2 and L1 layers. Expressed in the center of flower meristem through stages 4 and 5. At stage 6, expressed in the adaxial side of the carpel primordia and then on the adaxial carpel face. {ECO:0000269|PubMed:11169198}.
UniprotTISSUE SPECIFICITY: Expressed in the interfascicular regions of stem and vascular bundles of young roots and leaves. {ECO:0000269|PubMed:10559440}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of interfascicular fiber (cortical cells) and secondary xylem differentiation in the inflorescence stems. Required for lateral shoot meristems (LSMs) and flower meristems (FMs) initiation. May be involved in the determination of vascular patterning and organ polarity (PubMed:10559440, PubMed:11169198, PubMed:11402186, PubMed:15111711, PubMed:15598805, PubMed:7555701). Directly regulates the expression of AGO10, ZPR1, ZPR2, ZPR3 and ZPR4 (PubMed:22781836). Required to regulate adaxial-abaxial polarity and leaf axial patterning (PubMed:20807212). {ECO:0000269|PubMed:10559440, ECO:0000269|PubMed:11169198, ECO:0000269|PubMed:11402186, ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:15598805, ECO:0000269|PubMed:20807212, ECO:0000269|PubMed:22781836, ECO:0000269|PubMed:7555701}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00107329001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by ZPR and miR165. Induced by DOF5.1 (PubMed:20807212). {ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:17237362, ECO:0000269|PubMed:20807212}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009150087.10.0PREDICTED: homeobox-leucine zipper protein REVOLUTA-like isoform X1
RefseqXP_013642495.10.0homeobox-leucine zipper protein REVOLUTA-like isoform X1
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A3P5Z0W90.0A0A3P5Z0W9_BRACM; Uncharacterized protein
STRINGBra038295.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47792754
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60690.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Lian H,Li X,Liu Z,He Y
    HYL1 is required for establishment of stamen architecture with four microsporangia in Arabidopsis.
    J. Exp. Bot., 2013. 64(11): p. 3397-410
    [PMID:23918970]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Baima S, et al.
    Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module.
    Mol Plant, 2014. 7(6): p. 1006-1025
    [PMID:24777988]
  4. 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]
  5. 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]
  6. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  7. Shi B, et al.
    Two-Step Regulation of a Meristematic Cell Population Acting in Shoot Branching in Arabidopsis.
    PLoS Genet., 2016. 12(7): p. e1006168
    [PMID:27398935]