PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Rsa1.0_01882.1_g00004.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
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Family | ARF | ||||||||
Protein Properties | Length: 794aa MW: 88505 Da PI: 6.4339 | ||||||||
Description | ARF family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | B3 | 73.9 | 2e-23 | 127 | 227 | 1 | 98 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 f+k+lt sd++++g +++p++ ae+ ++++++ +l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+ Rsa1.0_01882.1_g00004.1 127 FCKTLTASDTSTHGGFSVPRRAAEKVfptldytQQPPAQ--ELIAKDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVTGDS 210 99*****************************96555555..8******************************************** PP EEEEE-SSSEE..EEEEE- CS B3 80 vvFkldgrsefelvvkvfr 98 v+F ++++ +l+++++ Rsa1.0_01882.1_g00004.1 211 VIFI--RNERNQLLLGIRH 227 ****..4577777988876 PP | |||||||
2 | Auxin_resp | 106 | 4.5e-35 | 253 | 336 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+t+s F+v+Y+Pr+++seFv ++ k+ ka+ ++vsvGmRf+m fete+ss rr++Gt++g+ dld+v WpnS+Wrs+k Rsa1.0_01882.1_g00004.1 253 AAHAAATNSCFTVFYHPRSTSSEFVLPLPKYIKAVFhTRVSVGMRFRMLFETEESSVRRYMGTITGIGDLDSVLWPNSHWRSVK 336 79*******************************986599******************************************985 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 4.32E-48 | 113 | 256 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 1.3E-40 | 120 | 242 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 8.60E-21 | 126 | 219 | No hit | No description |
SMART | SM01019 | 2.0E-21 | 127 | 229 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 12.182 | 127 | 229 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 3.7E-21 | 127 | 227 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 5.9E-31 | 253 | 336 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 5.5E-8 | 686 | 773 | IPR033389 | AUX/IAA domain |
SuperFamily | SSF54277 | 2.09E-7 | 688 | 764 | No hit | No description |
PROSITE profile | PS51745 | 23.118 | 689 | 773 | IPR000270 | PB1 domain |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0009725 | Biological Process | response to hormone | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0005515 | Molecular Function | protein binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 794 aa Download sequence Send to blast |
MNLSSSGFGH QSHEGEKKCL NSELWHACAG PLVSLPSSGS RVVYFPQGHS EQVAATTNKE 60 VEGHIPNYPT LPPQLICQLH NVTMHADLET DEVYAQMVLQ PLTQEEQKDT FVPIELGTPS 120 KQPSNYFCKT LTASDTSTHG GFSVPRRAAE KVFPTLDYTQ QPPAQELIAK DLHDNEWKFR 180 HIFRGQPKRH LLTTGWSVFV SAKRLVTGDS VIFIRNERNQ LLLGIRHATR PQTIVPSSML 240 SSDSMHIGLL AAAAHAAATN SCFTVFYHPR STSSEFVLPL PKYIKAVFHT RVSVGMRFRM 300 LFETEESSVR RYMGTITGIG DLDSVLWPNS HWRSVKVGWD ESTAGERQAR ASLWEIEPLT 360 TFPMYPSLFP LRLKRPWHPG ATSYQDSRGD LTWLRGGGAG ENGLLPLNYP SPNVFPWMQQ 420 RLDISLLATD QNQQYQAMLA AGLQNFGGGG GDPLRQQFVH LQEPNHQYLR QQSAAIHNSD 480 LQQHHQQQIP RHLLQAQTQI LSENLPQQNM RREVSNQVAV QAQQPDRVWQ HSDLISPSDF 540 TNNKFTSAAN PVQQQNLSLQ GSGDSSSNLL NFSITGGHSE QLPPTQDWSL KHSHYPETNF 600 FSEPLSLGQA YGRTSPSLEP PPSTQNLSLF GGDSDSGLFL PTTVPRFGNF SADAAADTSS 660 MPLTDSGFQN TALQGTTELA AHGVVEHKEN FVKVYKSGSV GRSLDISRFS SYQELIEELG 720 KMFDIKGLLE DAFRSGWQLV FVDKEDDILL LGDDPWESFV NSVWYIKILS PDDVHKMGGE 780 HGQGSSFPQN LTHF |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ldu_A | 1e-150 | 16 | 357 | 47 | 388 | Auxin response factor 5 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Auxin 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 activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Rsa1.0_01882.1_g00004.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | JN979471 | 0.0 | JN979471.1 Brassica rapa subsp. pekinensis auxin response factor 8-1 (ARF8-1) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018446176.1 | 0.0 | PREDICTED: auxin response factor 8-like | ||||
Swissprot | Q9FGV1 | 0.0 | ARFH_ARATH; Auxin response factor 8 | ||||
TrEMBL | H9B4D2 | 0.0 | H9B4D2_BRARP; Auxin response factor | ||||
STRING | Bra004125.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM1344 | 28 | 94 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G37020.1 | 0.0 | auxin response factor 8 |