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.011G091100.1
Common NameB456_011G091100, LOC105777013
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 ARF
Protein Properties Length: 674aa    MW: 75031.4 Da    PI: 5.8608
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.011G091100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B367.12.6e-21124224198
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+lt sd++++g +++ +++a+++       ++++ +  +l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F +
  Gorai.011G091100.1 124 FCKTLTASDTSTHGGFSVLRRHADDClppldmtQQPPWQ--ELIATDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFLR 212
                         99****************************975444444..8************************************************4 PP

                         -SSSEE..EEEEE- CS
                  B3  85 dgrsefelvvkvfr 98 
                             ++ l+v+v+r
  Gorai.011G091100.1 213 --GANGDLRVGVRR 224
                         ..367778999987 PP
2Auxin_resp114.88e-38250332183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+ha+st+s+F+++Y+Pr+s seF+v+v+k+++a ++k+svGmRfkm+fe+e+++err+sGt+vgv+d +++ W +S+WrsLk
  Gorai.011G091100.1 250 ASHALSTRSMFSIFYKPRTSLSEFIVSVNKYLEARSHKLSVGMRFKMRFEGEEVPERRFSGTIVGVEDNKSSAWADSEWRSLK 332
                         789******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.24E-42113253IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.5E-40121239IPR015300DNA-binding pseudobarrel domain
CDDcd100173.34E-20122224No hitNo description
PfamPF023623.6E-19124224IPR003340B3 DNA binding domain
SMARTSM010192.3E-20124226IPR003340B3 DNA binding domain
PROSITE profilePS5086310.898124226IPR003340B3 DNA binding domain
PfamPF065076.3E-35250332IPR010525Auxin response factor
PfamPF023096.3E-12540636IPR033389AUX/IAA domain
PROSITE profilePS5174526.956546639IPR000270PB1 domain
SuperFamilySSF542771.9E-11548623No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009734Biological Processauxin-activated signaling pathway
GO:0010150Biological Processleaf senescence
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 674 aa     Download sequence    Send to blast
MAFPASDIPS AEQQADDPLY RELWHACAGP LVTLPRVGER VYYFPQGHME QLEASMHQGL  60
EHQMPSFDLP SKILCKVASV QRKAEPDTDE VYAQITLVPE VDQSEVMSPD DPLQEPERCI  120
VHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMTQQPP WQELIATDLH GNEWHFRHIF  180
RGQPRRHLLT TGWSVFVSSK KLVAGDAFIF LRGANGDLRV GVRRLMRQQA NMPSSVISSH  240
SMHLGVLATA SHALSTRSMF SIFYKPRTSL SEFIVSVNKY LEARSHKLSV GMRFKMRFEG  300
EEVPERRFSG TIVGVEDNKS SAWADSEWRS LKVQWDEPSS IIRPDRVSPW ELEPLVATSN  360
SSISQPAQRN KRARPPVLPS PSSDLSSLGI WKSPVESPFS YCDAQRGQPS PKLSSTAKPN  420
SVGFSGNSSL AAVSSSSKYW PNRVENVTES VAPVVNKESS ERKQGTGNGC RLFGIQLLDN  480
INMEENSPLA TISGTGVNDQ PLHSLDANSD QQSDPSNLNQ SDLPSISCEP EKCLRSPQES  540
QSKQIRSCTK VHMQGMAVGR AVDLTRFDCY EDLLKKLEYM FDIKGQLCGS TKNWQVVYTD  600
DEDDMMMVGD DPWNEFCSMV RKIFIYTSEE VRKLSPKIKL PVNDDDDDSK ATKAGVDTVI  660
NPEDRSSIVG QGC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.01736117361Auxin response factor 1
4ldw_A0.01736117361Auxin response factor 1
4ldw_B0.01736117361Auxin response factor 1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the sepals and carpels of young flower buds. At stage 10 of flower development, expression in the carpels becomes restricted to the style. Also expressed in anthers and filaments. At stage 13, expressed in the region at the top of the pedicel, including the abscission zone. {ECO:0000269|PubMed:16176952}.
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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). Seems to act as transcriptional repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16176952}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00097PBMTransfer from AT1G59750Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ1539830.0DQ153983.1 Gossypium barbadense auxin response factor 1 (ARF1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012455499.10.0PREDICTED: auxin response factor 1 isoform X1
RefseqXP_012455500.10.0PREDICTED: auxin response factor 1 isoform X1
RefseqXP_012455501.10.0PREDICTED: auxin response factor 1 isoform X1
RefseqXP_012455502.10.0PREDICTED: auxin response factor 1 isoform X1
RefseqXP_012455503.10.0PREDICTED: auxin response factor 1 isoform X1
RefseqXP_012455504.10.0PREDICTED: auxin response factor 1 isoform X1
SwissprotQ8L7G00.0ARFA_ARATH; Auxin response factor 1
TrEMBLA0A0D2UQ690.0A0A0D2UQ69_GOSRA; Auxin response factor
STRINGGorai.011G091100.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88252227
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.40.0auxin response factor 1
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. Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F
    Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum.
    Plant J., 2014. 80(6): p. 1014-30
    [PMID:25312353]
  3. Marais C, et al.
    The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana.
    J. Exp. Bot., 2015. 66(21): p. 6665-78
    [PMID:26208648]
  4. 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]
  5. Zhang M,Hu X,Zhu M,Xu M,Wang L
    Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis.
    Sci Rep, 2017. 7(1): p. 1395
    [PMID:28469131]