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 GSBRNA2T00047098001
Common NameGSBRNA2T00047098001
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: 767aa    MW: 84208.2 Da    PI: 6.4074
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00047098001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox55.69.2e-182684357
                         --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
             Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                         k  ++t+eq+e+Le+++ ++++p+  +r++L +++    +++ +q+kvWFqNrR ++k+
  GSBRNA2T00047098001 26 KYVRYTAEQVEALERVYSECPKPTSLRRQQLIRECsflaNIEPKQIKVWFQNRRCRDKQ 84
                         56789***************************************************996 PP
2bZIP_120.21.3e-06781231863
                          HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
               bZIP_1  18 rrsRqRKkaeieeLeekvkeLeaeNkaLkkeleelkkevaklksev 63 
                          rr+R + ++e  +L+   ++L+a Nk L +e+++l+k+v+ l se+
  GSBRNA2T00047098001  78 RRCRDKQRKEASRLQSVNQKLSAMNKLLMEENDRLQKQVSHLVSEN 123
                          9***************************************998887 PP
3START156.12.9e-491653722204
                          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+     sg  g
  GSBRNA2T00047098001 165 IAEETLAEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISQKCNGVAARACGLVSLEPMKIVEILKDRP-SWFRDCRSLEVFTMFPSGncG 253
                          68999*****************************************************9999999999.********************* 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+    +++++ae+lpSg+li+p+++g s +++v+h++ +g+
  GSBRNA2T00047098001 254 TIELIYMQTYAPTTLAPaRDFWTLRYTTSLENGSFVVCERSLSGSGAGPNatsAAQFAKAEMLPSGYLIRPCDGGCSIIHIVDHINFEGW 343
                          *******************************************999999889899*********************************** PP

                          XXHHHHHHHHHHHHHHHHHHHHHHTXXXX CS
                START 176 lphwllrslvksglaegaktwvatlqrqc 204
                          +++ +lr+l++s+ + +++++ a+l++ +
  GSBRNA2T00047098001 344 SVPDVLRPLYESSKVVAQRMTIAALRYVR 372
                          *************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.2732185IPR001356Homeobox domain
SuperFamilySSF466892.78E-162388IPR009057Homeodomain-like
SMARTSM003891.8E-142389IPR001356Homeobox domain
CDDcd000861.69E-152686No hitNo description
PfamPF000462.9E-152784IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.604.8E-182881IPR009057Homeodomain-like
CDDcd146861.82E-678117No hitNo description
Gene3DG3DSA:1.20.5.1709.6E-482130No hitNo description
PROSITE profilePS5084825.388155383IPR002913START domain
CDDcd088751.45E-69159373No hitNo description
Gene3DG3DSA:3.30.530.201.8E-17163355IPR023393START-like domain
SMARTSM002344.4E-37164374IPR002913START domain
PfamPF018528.9E-47165372IPR002913START domain
SuperFamilySSF559613.98E-32165374No hitNo description
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: 767 aa     Download sequence    Send to blast
MAMTVAVANR HESGDNINRH LDSSGKYVRY TAEQVEALER VYSECPKPTS LRRQQLIREC  60
SFLANIEPKQ IKVWFQNRRC RDKQRKEASR LQSVNQKLSA MNKLLMEEND RLQKQVSHLV  120
SENGYMKQQL TLTTVGTDAS CDSVDPTPPH HPLTDANSPA GLIAIAEETL AEFLSKATGT  180
AVDWVQMPGM KPGPDSVGIF AISQKCNGVA ARACGLVSLE PMKIVEILKD RPSWFRDCRS  240
LEVFTMFPSG NCGTIELIYM QTYAPTTLAP ARDFWTLRYT TSLENGSFVV CERSLSGSGA  300
GPNATSAAQF AKAEMLPSGY LIRPCDGGCS IIHIVDHINF EGWSVPDVLR PLYESSKVVA  360
QRMTIAALRY VRQVAHETNG EVVYGLGRQP AVLRTFSQRL SRGFNDAVNG FNDDGWSIMH  420
CNGAEDITVA VNSTKNLNSF SDPLSFLGGV LCAKASMLLH NVCPAVLIRF LREHRSEWAD  480
FNVDAYSAAT LKAGAFAYSR MRPTTFTGSQ IIMPLGNTIE KEEMLEVVRL EGHSLVPEDS  540
FLTRDVHLLQ ICTGIDEDAV GACSELVFAP VNEMFPDDAP LVPSGFRVIP VDAKTVGDAQ  600
DLLTANHQTL DLTSSQDVGS TPETGSNLST RCILTIAFQF PFENNLQDNV ANMACQYVRS  660
VISSVQRVAV ALSPSVLIPI PGSKLSPGSP EAVSLAIWIC QSYKQHFGSD LLRTDSLGEY  720
RVRVLGPVNP LPTACVTQRS LCVIHEFERK NKIDVTGLLQ IVPKMM*
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
PlantRegMapGSBRNA2T00047098001
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_013675790.10.0homeobox-leucine zipper protein REVOLUTA-like isoform X1
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A078H0Q40.0A0A078H0Q4_BRANA; BnaC03g55030D protein
STRINGBo3g128750.10.0(Brassica oleracea)
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
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]