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 XP_009149243.1
Organism
Brassica rapa
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: 694aa    MW: 77133.6 Da    PI: 7.0191
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009149243.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.18.2e-202071556
                    SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                    +++t++q+++Le+ F+++++p++++r +L+k+lgL+ rq+k+WFqNrR+++k
  XP_009149243.1 20 HRHTPHQIHRLESSFNECQHPDEKQRLQLSKELGLSPRQIKFWFQNRRTQKK 71
                    679**********************************************988 PP
2START139.63.2e-442114312205
                     HHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGG...CT-TT-SEEEEEE CS
           START   2 laeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddke...qWdetlakaetle 83 
                     ++ +a++el+++ + +e++W k s   + +n + +   f++s +        + ea r sgvv+ ++ +lv+ l+d+ +    ++  +a+ +tl+
  XP_009149243.1 211 ISVTAMEELLRLTQTNEALWIKTSgcrDVLNLQRYENMFPRSSGrggknhnVRKEATRSSGVVFTNAITLVNMLMDSVKsseLFSSVVASSKTLA 305
                     67899**********************999999999999998889999998999************************9999************* PP

                     EECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE CS
           START  84 vissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvd 171
                     v+ssg       al+lm  elq+lsplv  R+f ++Ry++q + g+w+i+ vS + +q+ p +s   R+ ++pSg+li+++sng+skvtwvehv+
  XP_009149243.1 306 VVSSGvrgshgDALHLMLEELQVLSPLVQtREFSVLRYCQQIEHGTWAILNVSYELPQFIP-HS---RSYRFPSGCLIQDLSNGYSKVTWVEHVE 396
                     **********9**************************************************.55...5555************************ PP

                     --SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
           START 172 lkgrlp.hwllrslvksglaegaktwvatlqrqce 205
                     ++++ p h++++  ++ g+a+ga +w atlqr  e
  XP_009149243.1 397 VEEQEPiHEMFKDNIREGIAFGAERWIATLQRMSE 431
                     *******************************9877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.3E-20767IPR009057Homeodomain-like
SuperFamilySSF466892.38E-19976IPR009057Homeodomain-like
PROSITE profilePS5007117.4911373IPR001356Homeobox domain
SMARTSM003891.2E-191477IPR001356Homeobox domain
CDDcd000861.89E-191674No hitNo description
PfamPF000462.0E-172071IPR001356Homeobox domain
PROSITE patternPS0002704871IPR017970Homeobox, conserved site
PROSITE profilePS5084844.378201435IPR002913START domain
SuperFamilySSF559613.02E-29202434No hitNo description
CDDcd088756.98E-86205431No hitNo description
SMARTSM002346.5E-30210432IPR002913START domain
PfamPF018523.0E-37211431IPR002913START domain
Gene3DG3DSA:3.30.530.202.1E-7264398IPR023393START-like domain
SuperFamilySSF559613.11E-18452658No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 694 aa     Download sequence    Send to blast
MEFLGDSSET DKKKMKKRFH RHTPHQIHRL ESSFNECQHP DEKQRLQLSK ELGLSPRQIK  60
FWFQNRRTQK KAQHERADNC ALKEENDRIR CENIAIREAI KHAICLNCGD APLHEDSYFD  120
EQKLRIENAH LREELEKVSS IAAQFMGRPL SHLPPLLNPM HVSPLELFHS GPSLDFDLLT  180
GSSSSSMTVT TLPSQPNLVL SDMDKSLMTN ISVTAMEELL RLTQTNEALW IKTSGCRDVL  240
NLQRYENMFP RSSGRGGKNH NVRKEATRSS GVVFTNAITL VNMLMDSVKS SELFSSVVAS  300
SKTLAVVSSG VRGSHGDALH LMLEELQVLS PLVQTREFSV LRYCQQIEHG TWAILNVSYE  360
LPQFIPHSRS YRFPSGCLIQ DLSNGYSKVT WVEHVEVEEQ EPIHEMFKDN IREGIAFGAE  420
RWIATLQRMS ERFKALLEPA TSSRDLKGVV PTPEGKQSIM RLAQRMVSNF CLSVGTSNST  480
RSTVVSGLDA FGIRVTSYKS QHEPNGMVLC AATSFWLPVS PQNVFNFLKD ERTRPQWDVL  540
LNGSAVQEVA HIANGSHPGN CISVLRGFNA SSSQNNMLIL QESCVDSSGS LVVYTPVDLS  600
ALNMAMTGQD TSYIPILPSG FAVLPEGGRN NQTAEIKAEG GGEGGGSLIT VGFQIMVSSL  660
QSGKLNMESM ETVNNLISTT VHQIKTTLNS PSTA
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in all cells at the 4- and 16-cell embryo stages. Expression is restricted to the protoderm from the globular stage onward. {ECO:0000269|PubMed:25564655}.
UniprotTISSUE SPECIFICITY: Expressed in apical meristems and young epidermal tissue including trichomes and stipules. Expressed in lateral root tips, the L1 layer of apical inflorescence meristems and early flower primordia, carpel and stamen filament epidermis, stigma papillae, ovule primordia, nucellus and embryo. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as negative regulator of trichome branching in association with HDG11 (PubMed:16778018). May regulate cell differentiation and proliferation during root and shoot meristem development (PubMed:25564655). Acts as positive regulator of SCL18/LAS expression (PubMed:25358340). {ECO:0000269|PubMed:16778018, ECO:0000269|PubMed:25358340, ECO:0000269|PubMed:25564655}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009149243.1
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_009149243.10.0PREDICTED: homeobox-leucine zipper protein HDG12
RefseqXP_018515226.10.0PREDICTED: homeobox-leucine zipper protein HDG12
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLM4EAX90.0M4EAX9_BRARP; Uncharacterized protein
STRINGBra025938.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30042665
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17920.10.0homeodomain GLABROUS 12
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. Tian C, et al.
    An organ boundary-enriched gene regulatory network uncovers regulatory hierarchies underlying axillary meristem initiation.
    Mol. Syst. Biol., 2014. 10: p. 755
    [PMID:25358340]
  3. Horstman A, et al.
    AIL and HDG proteins act antagonistically to control cell proliferation.
    Development, 2015. 142(3): p. 454-64
    [PMID:25564655]