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 Itr_sc000571.1_g00009.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family TCP
Protein Properties Length: 574aa    MW: 63136.7 Da    PI: 6.7691
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000571.1_g00009.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP115.57.1e-36203333289
                      TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasns 85 
                              +g+kdrhsk++T++g+RdRRvRl a++a++f+d+qd+LG+d++sk+++WL+++akpai+el+++++ +++ +  + +++  ++++ 
  Itr_sc000571.1_g00009.1 203 TGRKDRHSKVCTAKGPRDRRVRLAAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKPAIDELAELPAWKPNTVnpNFDQEDAQKQHR 288
                              79**************************************************************8888877744333333333333 PP

                      TCP  86 ssg...........................................k 89 
                                +                                            
  Itr_sc000571.1_g00009.1 289 --EtpgdanlldnvagpskrgmimqesenessflppsldsdsiadtI 333
                              ..224666777777655555555555544555555555555555542 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036348.8E-32203311IPR005333Transcription factor, TCP
PROSITE profilePS5136933.521205263IPR017887Transcription factor TCP subgroup
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009793Biological Processembryo development ending in seed dormancy
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 574 aa     Download sequence    Send to blast
MRLQRTLILL SDPRLPPSPL ASTPLITQTR IHLPPSSSSS SSSCSSSLEM NTLGCLGEEV  60
GETERGISIV LIGVGRAERI EEWEVGWVVS DFREWEKPLR KSCVYQKLDP QRNQQQKQHH  120
RLHFSDQIQG EEEEEDPSGN PPPPPPKKRS YFPSTEEHAR LRGRMGENRQ QQQQQQGSSS  180
RLGLRNAGGE IVEVQGGHIV RSTGRKDRHS KVCTAKGPRD RRVRLAAHTA IQFYDVQDRL  240
GYDRPSKAVD WLIKKAKPAI DELAELPAWK PNTVNPNFDQ EDAQKQHRET PGDANLLDNV  300
AGPSKRGMIM QESENESSFL PPSLDSDSIA DTIKSFFPMG ASEQPNSSSM QFQTFAQHSD  360
LLSRSQSQDL RLSLQSFQDP TILLHHQNQQ AQHHPNPGSH RAILTGFDAS GWAEHNQQNQ  420
QRFPAWHGGG GGDGAAAAAT CSSSGSGGAA AASATGGYLF NSPQQPLFQQ LFGGQNQFFP  480
SQRGPLQSSY TPSVRAWMDP SPAIAIASVD PNQQHQHYQS AMLPIYPSSL SGIGFSTGVG  540
EFSGFRIPAR IQGEEEEHDG ISDKPSSASS DSRR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A6e-19210263154Putative transcription factor PCF6
5zkt_B6e-19210263154Putative transcription factor PCF6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor playing a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:15634699, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:18816164, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00009PBMTransfer from 929286Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:18816164}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM3577900.0HM357790.2 Ipomoea nil TCP family transcription factor TCP4 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019154084.10.0PREDICTED: transcription factor TCP4-like
RefseqXP_019154085.10.0PREDICTED: transcription factor TCP4-like
RefseqXP_019154087.10.0PREDICTED: transcription factor TCP4-like
SwissprotQ8LPR53e-92TCP4_ARATH; Transcription factor TCP4
TrEMBLE2GIJ00.0E2GIJ0_IPONI; TCP family transcription factor TCP4
STRINGXP_009630327.11e-149(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA32072349
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G53230.15e-51TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 3
Publications ? help Back to Top
  1. Schommer C, et al.
    Control of jasmonate biosynthesis and senescence by miR319 targets.
    PLoS Biol., 2008. 6(9): p. e230
    [PMID:18816164]
  2. Ju Y, et al.
    Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments.
    Plant Cell, 2016. 28(9): p. 2131-2146
    [PMID:27468890]
  3. Challa KR,Aggarwal P,Nath U
    Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis.
    Plant Cell, 2016. 28(9): p. 2117-2130
    [PMID:27597774]
  4. Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL
    Active suppression of a leaf meristem orchestrates determinate leaf growth.
    Elife, 2017.
    [PMID:27710768]
  5. Li J, et al.
    RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis.
    J. Exp. Bot., 2016. 67(22): p. 6473-6480
    [PMID:27838638]
  6. Sun X, et al.
    Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor.
    Plant Biotechnol. J., 2017. 15(10): p. 1284-1294
    [PMID:28233945]
  7. Kubota A, et al.
    TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis.
    PLoS Genet., 2017. 13(6): p. e1006856
    [PMID:28628608]
  8. Koyama T,Sato F,Ohme-Takagi M
    Roles of miR319 and TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2017. 175(2): p. 874-885
    [PMID:28842549]
  9. Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C
    Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2018. 176(2): p. 1694-1708
    [PMID:29133375]
  10. Vadde BVL,Challa KR,Nath U
    The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana.
    Plant J., 2018. 93(2): p. 259-269
    [PMID:29165850]
  11. Challa KR,Rath M,Nath U
    The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways.
    PLoS Genet., 2019. 15(2): p. e1007988
    [PMID:30742619]