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 orange1.1g038793m
Common NameCISIN_1g038793mg
Organism
Citrus sinensis
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 B3
Protein Properties Length: 252aa    MW: 28523.3 Da    PI: 5.0728
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g038793mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3505.4e-16160247183
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                        f k+l  sd +k++ +v+  k ae+        ++kk+ +  ++ +d +g  W++++ +++ks+r++lt GWk Fv++++L  gD+v+F 
  orange1.1g038793m 160 FYKKLRASDQSKKK-IVIRAKDAENVfpflahlDYKKQINYSVIAKDVHGVAWKFNF-VDGKSRRHYLTVGWKYFVRQKNLVPGDTVIFI 247
                        77999899999887.********777*******99999*******************.8*****************************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.1E-20152248IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.57E-16155248IPR015300DNA-binding pseudobarrel domain
CDDcd100172.38E-14158246No hitNo description
PfamPF023625.8E-13160247IPR003340B3 DNA binding domain
PROSITE profilePS5086310.532201251IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 252 aa     Download sequence    Send to blast
ETIDAPSETE TDDLNSTEIS DEDDCEGEIE TDDLIFTEIS DKDDDYNLLL WQAFAGPPPS  60
LPKKGDLVVY FPQGHLEYSA PASVSKAPPT FDLKPEIICR VADVRYLVSK KTDKVYTKMT  120
LLPLPEMVGE NFKGKELQDL VVDNKRDGEG STANSTPPLF YKKLRASDQS KKKIVIRAKD  180
AENVFPFLAH LDYKKQINYS VIAKDVHGVA WKFNFVDGKS RRHYLTVGWK YFVRQKNLVP  240
GDTVIFIRYA Y*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A2e-275024823212Auxin response factor 1
4ldw_A2e-275024823212Auxin response factor 1
4ldw_B2e-275024823212Auxin response factor 1
4ldx_A2e-275024823212Auxin response factor 1
4ldx_B2e-275024823212Auxin response factor 1
4ldy_A2e-275024823212Auxin response factor 1
4ldy_B2e-275024823212Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Csi.2890.0fruit
Expression -- Description ? help Back to Top
Source Description
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). 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024041814.11e-178auxin response factor 3 isoform X1
RefseqXP_024041815.10.0auxin response factor 4 isoform X3
RefseqXP_024041816.10.0auxin response factor 4 isoform X3
RefseqXP_024956870.10.0auxin response factor 4-like isoform X3
SwissprotQ9ZTX93e-52ARFD_ARATH; Auxin response factor 4
TrEMBLA0A067DIG40.0A0A067DIG4_CITSI; Uncharacterized protein (Fragment)
STRINGXP_006482934.11e-177(Citrus sinensis)
STRINGXP_006438940.11e-177(Citrus clementina)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.11e-54auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]