PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.011G016200.3
Common NameB456_011G016200
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: 495aa    MW: 55376.3 Da    PI: 5.9158
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.011G016200.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.27.9e-2066121156
                         TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         r++ +++t+ q++e+e+lF+++++p+ ++r++L+++lgL+  qVk+WFqN+R++ k
  Gorai.011G016200.3  66 RKRYHRHTQRQIQEMEALFKECPHPDDKQRKQLSRELGLDPLQVKFWFQNKRTQLK 121
                         688899**********************************************9877 PP
2START2083.7e-652544761206
                         HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS.........SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S... CS
               START   1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv........dsgealrasgvvdmvlallveellddkeqWdetla... 77 
                         ela +a++el+++a+++ep+Wv++    + +n+ e+l++f+++ +        +++ea+r+ ++ +m++++lve+l+d++ qW++ +    
  Gorai.011G016200.3 254 ELAVTAMEELIRMAQSGEPLWVTDEnsiDVLNENEYLRIFPRGIGskpfanlgFRSEASREAALIIMNPVNLVEILMDVN-QWSRVFCgiv 343
                         57899*********************99**************999***********************************.******9999 PP

                         .EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTC CS
               START  78 .kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksng 160
                          +a+tl+v+s+g      galq+m+ae+q++splvp R+ +f+Ry++++ +g w++vdvS+d+ ++ p    + R++++pSg+li++++ng
  Gorai.011G016200.3 344 sRAMTLDVLSTGiagnynGALQVMTAEFQLPSPLVPtRENYFARYCKRHHDGIWAVVDVSLDNLRHAP----FTRCRRRPSGCLIQELPNG 430
                         9*****************************************************************99....9****************** PP

                         EEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
               START 161 hskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                         +skv+wve+v++++r ++ +++ lv+++la+gak+wvatl+rqce+
  Gorai.011G016200.3 431 YSKVIWVENVEVDDRGVSDIYKTLVNTSLAFGAKRWVATLDRQCER 476
                         ********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.8E-2246121IPR009057Homeodomain-like
SuperFamilySSF466892.88E-1949123IPR009057Homeodomain-like
PROSITE profilePS5007116.81163123IPR001356Homeobox domain
SMARTSM003896.0E-1864127IPR001356Homeobox domain
PfamPF000462.0E-1766121IPR001356Homeobox domain
CDDcd000866.06E-1766123No hitNo description
PROSITE patternPS00027098121IPR017970Homeobox, conserved site
PROSITE profilePS5084844.549245479IPR002913START domain
SuperFamilySSF559618.79E-34246478No hitNo description
CDDcd088752.45E-123249475No hitNo description
SMARTSM002343.7E-65254476IPR002913START domain
PfamPF018529.6E-56255476IPR002913START domain
Gene3DG3DSA:3.30.530.202.2E-6352476IPR023393START-like domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 495 aa     Download sequence    Send to blast
MFNSDLYENL NMFDMFQRPS DSDQTERNGD DDNNDTKSGT EVDAPSADDD NQGPASSGPS  60
RRRAKRKRYH RHTQRQIQEM EALFKECPHP DDKQRKQLSR ELGLDPLQVK FWFQNKRTQL  120
KAQTERHENG LLKAENEKLR AENHRYKEAL NNTSCPTCGG PAALGEMSFE EQHLRLENAR  180
LREEIERISG VTAKYVGKPI GPSFSRFADR APISFGTQPE FLGEYGGPGG GGGLGEVLRP  240
VSVTNEADKP LIVELAVTAM EELIRMAQSG EPLWVTDENS IDVLNENEYL RIFPRGIGSK  300
PFANLGFRSE ASREAALIIM NPVNLVEILM DVNQWSRVFC GIVSRAMTLD VLSTGIAGNY  360
NGALQVMTAE FQLPSPLVPT RENYFARYCK RHHDGIWAVV DVSLDNLRHA PFTRCRRRPS  420
GCLIQELPNG YSKVIWVENV EVDDRGVSDI YKTLVNTSLA FGAKRWVATL DRQCERLASA  480
MANSIPAGDL GGNI*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16066RRRAKRK
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Specifically expressed in the layer 1 (L1) of shoot meristems. {ECO:0000269|PubMed:12505995}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269|PubMed:12505995}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX6159801e-179JX615980.1 Gossypium hirsutum clone NBRI_GE60293 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012457027.10.0PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
RefseqXP_012457028.10.0PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
RefseqXP_012457029.10.0PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLA0A0D2T0T30.0A0A0D2T0T3_GOSRA; Uncharacterized protein
STRINGGorai.011G016200.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G04890.10.0protodermal factor 2
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. 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]
  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]