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 | RrC1197_p5 | ||||||||
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 | FAR1 | ||||||||
Protein Properties | Length: 755aa MW: 86232.5 Da PI: 8.0281 | ||||||||
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 | 69.8 | 6.6e-22 | 123 | 241 | 2 | 91 |
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk.............................tekerrtraetrtgCkaklkvkke 71 fY+eY+++vGF++ +++s++sk+++e+++++f Cs++g+++e +k+ +r+ +t+Cka+++vk++ RrC1197_p5 123 FYQEYSRTVGFNTAIQNSRRSKTTREFIDAKFACSRYGTKREYDKSfnnrprarqskqhqehpppppppienvsgGGGGGGRRTCAKTDCKASMHVKRK 221 *******************************************999******99988888888888777766555444445999*************** PP FAR1 72 kdgkwevtkleleHnHelap 91 dgkw++++++ +HnHel p RrC1197_p5 222 PDGKWVIHSFVRDHNHELLP 241 *****************975 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF03101 | 1.1E-19 | 123 | 241 | IPR004330 | FAR1 DNA binding domain |
PROSITE profile | PS50966 | 9.161 | 478 | 514 | IPR007527 | Zinc finger, SWIM-type |
SMART | SM00575 | 2.9E-6 | 489 | 516 | 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: 755 aa Download sequence Send to blast |
KRQLAPIGAC LLATRLQIVC FLFDSTPLRP RKVMDIDLRL HSGDLCKEAG DVDDEQQQQQ 60 QQHRGLDNED IDISKIEDDV TVDVQHPDNN NNNNSTSVPE QQGVNLEPLN GMEFNSHGEA 120 YTFYQEYSRT VGFNTAIQNS RRSKTTREFI DAKFACSRYG TKREYDKSFN NRPRARQSKQ 180 HQEHPPPPPP PIENVSGGGG GGGRRTCAKT DCKASMHVKR KPDGKWVIHS FVRDHNHELL 240 PAQAVSEQTR KVYAAMAKQF AEYKTVISLK SESKSSFEKG RSLSVVETGD FKVSENLGQV 300 AKQHENFTAK FEKCIYKSWK EEDFARRWWK ILARFGLKDD QWMQSLYEDR RKWAPTYMTD 360 VLLAGMSTSQ RADSVNAYFD KYLHKKTSVQ EFVKLYDMIL QDRFEEEAKA DSETWNKPPT 420 MKSPSPFEKS VSEVYTPAVF KKFQIEVLGA IACSPREENR DATCSTFRVQ DFENNQDFVV 480 TWNQAKAEVS CMCRLFEYKG YLCRHTLNVL QCCHLSSIPS QYILKRWTKD ARSQHFPGEP 540 QQLQTRVQRY NDLCQRALKL SEEASISQES YNIAFLAIEE ALGNCAGVNT SGRSLPDVVT 600 SPTQGLISVE EDNQSRSAVK TTSKKKNPTK KRKVNSEQEV MPVAAPESLQ PMDKLSPRTV 660 GLESYYGTQQ SVQNLVQLNL MGPNRDNFYG NHQQTIQGLR QLNSIAPSYD SYYTAQQGIH 720 GQGVDFFRPP NFTYDIRDDP NVRTPQLHED ASRHT |
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 |
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_018492466.1 | 0.0 | PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1 | ||||
Refseq | XP_018492467.1 | 0.0 | PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1 | ||||
Swissprot | Q9LIE5 | 0.0 | FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3 | ||||
TrEMBL | A0A397ZDF0 | 0.0 | A0A397ZDF0_BRACM; Uncharacterized protein | ||||
TrEMBL | A0A3P5YVM0 | 0.0 | A0A3P5YVM0_BRACM; Uncharacterized protein | ||||
TrEMBL | M4ERA7 | 0.0 | M4ERA7_BRARP; Uncharacterized protein | ||||
STRING | Bra031330.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | 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 |