PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID orange1.1g008078m
Common NameCISIN_1g008078mg
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family ARF
Protein Properties Length: 579aa    MW: 63867.2 Da    PI: 6.0342
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g008078mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.81.2e-24122223199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f k+ltpsd+++ g +++p+ +a+++         ++ +   ++++d +g +We+++iyr++++r++lt+GW++Fv+ ++L +gD+vvF+  
  orange1.1g008078m 122 FAKILTPSDANNGGGFSVPRFCADSIfpplnyqVDPPVQ--NISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFM-- 209
                        89*********************999****996444445..6999*********************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        ++s+++++++++r+
  orange1.1g008078m 210 RDSRGKMYIGLRRS 223
                        5689999***9986 PP

2Auxin_resp81.22.3e-27253334383
         Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                        ++a  + +FevvY+Pra++++F+v++e v +a++v +++GmR+km +etedss+ ++ +Gtv++ s  d   W +S+W +L+
  orange1.1g008078m 253 ERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWiQGTVTAASMPDRGPWCGSPWGMLE 334
                        56667889**********************************************************************9985 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.05E-29115232IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.4E-33118226IPR015300DNA-binding pseudobarrel domain
CDDcd100171.61E-20122222No hitNo description
PROSITE profilePS5086312.647122224IPR003340B3 DNA binding domain
PfamPF023623.5E-22122223IPR003340B3 DNA binding domain
SMARTSM010197.9E-22122224IPR003340B3 DNA binding domain
PfamPF065079.8E-25252333IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 579 aa     Download sequence    Send to blast
MPSQQPYSPA EPRAVDPRIW RACAGSSVQI PSVNSRVYYF PQGHVEQSCP SITLSVTKPF  60
IPCLITHVEF LADPVTDQVF AKVVLNPITA LEPSRNFLEQ QQEQQPRGLS IGNVEENNVV  120
AFAKILTPSD ANNGGGFSVP RFCADSIFPP LNYQVDPPVQ NISVTDIHGA VWEFRHIYRG  180
TPRRHLLTTG WSKFVNRKKL IAGDSVVFMR DSRGKMYIGL RRSVRYGNNG DSAGARWREQ  240
TGMKAEAVAV AVERAVLGLP FEVVYYPRAG WADFIVRAEV VDSAMRVFWT AGMRVKMVVE  300
TEDSSRMTWI QGTVTAASMP DRGPWCGSPW GMLEVTWDEP EILQNAKRVS PWQIEFVSPT  360
QPLHTAFPPA KRLKFSPNYG SMTDVEEEIF FPVNGLGNST VGCLNPSLLN YNTFPAGMQG  420
ARQNPYSLFS LSNFISENNH QMSSDGIFGN NMVPKLRRVS TELNIGSSQS DNLSPDSHSS  480
VHSFGTELGG NQGCNSTKVG VRSIQLFGKI IHMKQPVESG FGDVVCPDDD GSKGFSERED  540
VNLPLDLSLT YTELLNRFGI QGRGSEVEDE VVAEACSL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A4e-671535551388Auxin response factor 5
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
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_006434091.10.0auxin response factor 17
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A067GQ760.0A0A067GQ76_CITSI; Auxin response factor
STRINGXP_006434090.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.10.0auxin response factor 17
Publications ? help Back to Top
  1. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  2. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  3. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  4. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  5. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  6. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]