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 | Carubv10013009m | ||||||||
Common Name | CARUB_v10013009mg | ||||||||
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 | FAR1 | ||||||||
Protein Properties | Length: 794aa MW: 90884.8 Da PI: 6.8411 | ||||||||
Description | FAR1 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 | FAR1 | 81.1 | 1.9e-25 | 92 | 194 | 1 | 91 |
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtkle 82 +fY+eY++ +GF++ +++s++sk+++e+++++f Cs++g+++e +k+ e+ +r+ +t+Cka+++vk++ dgkw++++++ Carubv10013009m 92 SFYQEYSRAIGFNTAIQNSRRSKTTREFIDAKFACSRYGTKREYDKSfnrprarqskqdPENMAGRRTCAKTDCKASMHVKRRPDGKWVIHSFV 185 5*******************************************99999999877654444444499999************************ PP FAR1 83 leHnHelap 91 eHnHel p Carubv10013009m 186 REHNHELLP 194 ******975 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF03101 | 2.7E-23 | 92 | 194 | IPR004330 | FAR1 DNA binding domain |
Pfam | PF10551 | 1.5E-24 | 292 | 384 | IPR018289 | MULE transposase domain |
PROSITE profile | PS50966 | 9.26 | 572 | 608 | IPR007527 | Zinc finger, SWIM-type |
SMART | SM00575 | 6.7E-7 | 583 | 610 | IPR006564 | Zinc finger, PMZ-type |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0009585 | Biological Process | red, far-red light phototransduction | ||||
GO:0010218 | Biological Process | response to far red light | ||||
GO:0042753 | Biological Process | positive regulation of circadian rhythm | ||||
GO:0045893 | Biological Process | positive regulation of transcription, DNA-templated | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0008270 | Molecular Function | zinc ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 794 aa Download sequence Send to blast |
MDIDLRLHSG DLCKGDDEDR GLDNVLQNEH KLHDADEEDM DIGKIEDVSV EVHTDDSVGM 60 GVPTGDLVEY TEGMNLEPLN GMEFESHGEA YSFYQEYSRA IGFNTAIQNS RRSKTTREFI 120 DAKFACSRYG TKREYDKSFN RPRARQSKQD PENMAGRRTC AKTDCKASMH VKRRPDGKWV 180 IHSFVREHNH ELLPAQAVSE QTRKIYAAMA KQFAEYKTVI SLKSDSKSSF EKGRNISVET 240 GDFKILLDFL SRMQTVNSNL FYAVDLGDDQ RVKNVFWVDA KSRHNYGSFC DVVSLDTTYV 300 RNKYKMPLAI FVGVNQHYQY MVLGCALISD ESAATFSWLM ETWLRAMGGE APKVLITELD 360 IVMNSIVPEI FPNTRHCLFL WHVFMKVSEN LGQVIKQHDN FMPKFEKCIY KSCKEEDFAR 420 RWWKNLARFG LKDDQWMHSL YEDRKKWAPT YMTDVLLAGM STSQRAESIN AFFDKYMHKK 480 TSVPEFLKLY ETILQDRCEE EAKADSEMWN KQPTLKSPSP FEKSVSEVYT PAVFKKFQIE 540 VLGAIACSPR EESRDATGST FRVQDFETNQ DFVVTWNQTK DEVSCICRLF EYKGYLCRHT 600 LNVLQCCHLS SIPRQYILNR WTKDAKSPHF SGEPQQLQTR LLRYNDLCQR ALKLNEEASV 660 SQESYNIAFV AIEGALGNCA GINTSGKSLP DVVTSPTQGL ISVEEENQSR NAGKTSKKKN 720 PTKKRKVNPE PEVMPVAPPE SLQQMDKLSP RTVGIESYYG TQQSVQGMVQ LNLMAPTRDN 780 FYGNHQQTIQ GLV* |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription activator that recognizes and binds to the DNA consensus sequence 5'-CACGCGC-3'. Activates the expression of FHY1 and FHL involved in light responses. When associated with PHYA, protects it from being recognized and degraded by the COP1/SPA complex. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269|PubMed:11889039, ECO:0000269|PubMed:12753585, ECO:0000269|PubMed:17012604, ECO:0000269|PubMed:18033885, ECO:0000269|PubMed:18715961, ECO:0000269|PubMed:22634759}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00078 | ChIP-seq | Transfer from AT3G22170 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Carubv10013009m |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Down-regulated after exposure to far-red light. Subject to a negative feedback regulation by PHYA signaling. Up-regulated by white light. {ECO:0000269|PubMed:11889039, ECO:0000269|PubMed:18033885, ECO:0000269|PubMed:22634759}. |
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 | AP001306 | 0.0 | AP001306.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone:MKA23. | |||
GenBank | CP002686 | 0.0 | CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_023641623.1 | 0.0 | protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2 | ||||
Swissprot | Q9LIE5 | 0.0 | FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3 | ||||
TrEMBL | R0G3J3 | 0.0 | R0G3J3_9BRAS; Uncharacterized protein | ||||
STRING | XP_006297018.1 | 0.0 | (Capsella rubella) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM118 | 26 | 253 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G22170.2 | 0.0 | far-red elongated hypocotyls 3 |
Link Out ? help Back to Top | |
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Phytozome | Carubv10013009m |
Entrez Gene | 17892104 |