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 | Carubv10004220m | ||||||||
Common Name | CARUB_v10004220mg | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
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Family | ARF | ||||||||
Protein Properties | Length: 745aa MW: 82616.2 Da PI: 8.4962 | ||||||||
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 | 77.1 | 2e-24 | 194 | 295 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f k+lt+sd+++ g +++p+ +ae++ +++ + t+ +d +g +W++++iyr++++r++lt+GW++Fv++++L +gD++vF+ + Carubv10004220m 194 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGDVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFM--RA 283 89****************************985444444..8999*********************************************..44 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 +++ l+v+++r+ Carubv10004220m 284 ENGDLCVGIRRA 295 88999****997 PP | |||||||
2 | Auxin_resp | 113.5 | 2e-37 | 353 | 436 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 aa+ a ++ +FevvY+PrastseF+vk+ + ++a++++++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+ Carubv10004220m 353 AATLAISGRPFEVVYYPRASTSEFCVKALDARAAMRIPWCSGMRFKMAFETEDSSRISWfMGTVSAVNVSDPIRWPNSPWRLLQ 436 67788899**************************************************************************97 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:2.40.330.10 | 6.5E-39 | 186 | 301 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 9.03E-30 | 189 | 297 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 5.89E-22 | 192 | 294 | No hit | No description |
SMART | SM01019 | 7.1E-23 | 194 | 296 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 2.1E-22 | 194 | 295 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 13.352 | 194 | 296 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 3.1E-31 | 353 | 436 | IPR010525 | Auxin response factor |
PROSITE profile | PS51745 | 17.488 | 658 | 738 | 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:0007389 | Biological Process | pattern specification process | ||||
GO:0009734 | Biological Process | auxin-activated signaling pathway | ||||
GO:0048829 | Biological Process | root cap development | ||||
GO:0051301 | Biological Process | cell division | ||||
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: 745 aa Download sequence Send to blast |
MAEEPKAVSF IYTNSFFPIF LCAKVKKLPY PILKQQNQLR NLQILTKPRL VFFLNLRSFV 60 QICHCFSKTG VKKKMINVMN PLKGGSEKGL DPQLWHACAG GMVRMPPMNS KVFYFPQGHA 120 ENAYDCVDFG NMPIHPMVLC RVLAIKYMAD AESDEVFAKL RLIPLKEDDY VDHEYTDGDD 180 SNGFESNSEK TPSFAKTLTQ SDANNGGGFS VPRYCAETIF PRLDYNAEPP VQTILAKDVH 240 GDVWKFRHIY RGTPRRHLLT TGWSNFVNQK KLVAGDSIVF MRAENGDLCV GIRRAKRGGI 300 GNGPEYSAGW NPIGGSCGYS SLLREDESNT LRRSNCSLAD RKGKVTAESV IEAATLAISG 360 RPFEVVYYPR ASTSEFCVKA LDARAAMRIP WCSGMRFKMA FETEDSSRIS WFMGTVSAVN 420 VSDPIRWPNS PWRLLQVAWD EPDLLQNVKR VNPWLVELVS NVHPIPLTSF SPPRKKMRLP 480 QHPDYNNLIN SIPIPSFPSN PLIRSSPLSS VLDNVPVGLQ GARHNAHQYY GLSSSDLHHY 540 YLNRPPPPPP SSLPLSPSLG LRNIDSKNEK GFCFLTMGTT PCNDTASKKS HIVLFGKLIL 600 PEEQLSEKGS TDTANVEKTQ ISSGGSNQNN GIAGRDLSSS DEGSPCSKKV HDASGLETGH 660 CKVFMESDEV GRTLDLSVLG SYDELSRKLS DMFGIKKSEM LSSVLYKDAS GAIKYPGNEP 720 FSEFLKTARR LTILTEQGSE SVVI* |
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-75 | 76 | 457 | 37 | 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). 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}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00461 | DAP | Transfer from AT4G30080 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Carubv10004220m |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AY059792 | 0.0 | AY059792.1 Arabidopsis thaliana putative transcription factor (At4g30080) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_023635190.1 | 0.0 | auxin response factor 16 | ||||
Swissprot | Q93YR9 | 0.0 | ARFP_ARATH; Auxin response factor 16 | ||||
TrEMBL | R0GY89 | 0.0 | R0GY89_9BRAS; Auxin response factor | ||||
STRING | XP_006283190.1 | 0.0 | (Capsella rubella) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM580 | 27 | 130 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G30080.1 | 0.0 | auxin response factor 16 |
Link Out ? help Back to Top | |
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Phytozome | Carubv10004220m |
Entrez Gene | 17880728 |