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 Gorai.013G266900.2
Common NameB456_013G266900
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family HD-ZIP
Protein Properties Length: 816aa    MW: 89354.9 Da    PI: 5.83
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G266900.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.22.8e-182481457
                        -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
            Homeobox  4 RttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                          ++t+eq+e+Le++++++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Gorai.013G266900.2 24 YVRYTAEQVEALERVYAECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 81
                        5789****************************************************97 PP
2START156.91.7e-491623692204
                         HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EE CS
               START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..ga 90 
                         +aee+++e+++ka+ ++ +Wv+++ +++g++++ +f+ s+++sg a+ra+g+v  +++   +e+l+d++ W ++++k e+      g  g+
  Gorai.013G266900.2 162 IAEETLAEFLSKATGTAVNWVQMPGMKPGPDSVGIFAISQSCSGVAARACGLVSLEPT-KIAEILKDRPSWFRDCRKLEVFTMFPAGngGT 251
                         7899******************************************************.7777777777*************9999999** PP

                         EEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXX CS
               START  91 lqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlp 177
                         ++l ++++ a+++l+p Rdf+++Ry+ +l+ g++v++++S++     p+    +++vRae+lpSg+li+p+++g+s +++v++ +l+++++
  Gorai.013G266900.2 252 IELVYTQMFAPTTLAPaRDFWTLRYTTTLENGSLVVCERSLSGSGAGPSvasAAQFVRAEVLPSGYLIRPCEGGGSIIHIVDQLNLEAWSV 342
                         ******************************************998888889999************************************* PP

                         HHHHHHHHHHHHHHHHHHHHHHTXXXX CS
               START 178 hwllrslvksglaegaktwvatlqrqc 204
                         +++lr+l++s+ + ++k++  +l++ +
  Gorai.013G266900.2 343 PEVLRPLYESSKVIAQKMTIPALRYVR 369
                         ********************9999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.241882IPR001356Homeobox domain
SMARTSM003892.0E-152086IPR001356Homeobox domain
CDDcd000864.55E-162383No hitNo description
SuperFamilySSF466892.78E-162385IPR009057Homeodomain-like
PfamPF000467.2E-162481IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.8E-182581IPR009057Homeodomain-like
CDDcd146861.71E-675114No hitNo description
PROSITE profilePS5084826.735152380IPR002913START domain
CDDcd088751.06E-68156371No hitNo description
SuperFamilySSF559611.13E-33161371No hitNo description
SMARTSM002342.0E-40161371IPR002913START domain
Gene3DG3DSA:3.30.530.205.9E-19161344IPR023393START-like domain
PfamPF018523.9E-47162370IPR002913START domain
PfamPF086706.2E-29692790IPR013978MEKHLA
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: 816 aa     Download sequence    Send to blast
MAMAMTHHHN RESSVDKHLD TGKYVRYTAE QVEALERVYA ECPKPSSLRR QQLIRECPIL  60
SNIEPKQIKV WFQNRRCREK QRKEASRLQT VNRKLTAMNK LLMEENDRLQ KQVSQLVCEN  120
GYMRQQLHTV NASATDASCD SAVTTPQHSL RNANNPAGLL SIAEETLAEF LSKATGTAVN  180
WVQMPGMKPG PDSVGIFAIS QSCSGVAARA CGLVSLEPTK IAEILKDRPS WFRDCRKLEV  240
FTMFPAGNGG TIELVYTQMF APTTLAPARD FWTLRYTTTL ENGSLVVCER SLSGSGAGPS  300
VASAAQFVRA EVLPSGYLIR PCEGGGSIIH IVDQLNLEAW SVPEVLRPLY ESSKVIAQKM  360
TIPALRYVRQ ISQETSGEVV YSLGRQPAVL RTFSQRLSRG FNEAINGFNE DGWSIMNCDG  420
TEDVIIAINS SKSLSNSSNL STGLSFLGGV LCAKASMLLQ DVPPAVLVRF LREHRLEWAD  480
FNVDAYSAAS LKAGTYAYPG MRPTSFTGSQ IIMPLGQTVE HEELLEVIRL EGQSLTQEDA  540
FLSRDIHLLQ ICSGIDDNAV GACSELVFAP IDEMFPDDAA LLPSGFRIIL LESKPDSSAT  600
NRTLDLTSSL EVGPATSQAA GDSPCQNARS VLTIAFQFPF DTNLQDNVLT MARQYVRSVI  660
SSVQRIAMAI SPCGSSPTIG PKPSPGSPEA LTLAHWICQS YSFHLGEELL KSESLGGDSV  720
LKNLWQHQDA ILCCSLKSVP VFIFANQAGL DMLETTLVAL QDITLDKIFD ESGRKALCSD  780
FTKLMQQVSI NRTILVSTFN PTLNCSADEY GKFIS*
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}.
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY9664460.0AY966446.1 Gossypium barbadense class III HD-zip protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012462938.10.0PREDICTED: homeobox-leucine zipper protein REVOLUTA-like
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A0D2SKQ60.0A0A0D2SKQ6_GOSRA; Uncharacterized protein
STRINGGorai.013G266900.10.0(Gossypium raimondii)
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. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. 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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. 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]
  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]