PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

Function |

Regulation |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

RrC12583_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

FAR1

Protein Properties

Length: 489aa MW: 56135.8 Da PI: 6.6606

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC12583_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	91.6	1.1e-28	59	149	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk.tekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 fY+eYAk++GF++++++s++sk+++ +++++f Cs++g + e+++ +++ rr++++++t+Cka+++vk+++dg+w ++++ +eHnHel p RrC12583_p1 59 FYQEYAKSMGFTTSIKNSRRSKKTKDFIDAKFACSRYGATPESETGsSSSGRRSSSVKKTDCKASMHVKRKSDGRWIIHEFIKEHNHELLP 149 ************************************988777664789999*********************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	2.6E-27	59	149	IPR004330	FAR1 DNA binding domain

Sequence ? help Back to Top
Protein Sequence Length: 489 aa Download sequence Send to blast
MDLQESNNNN QMSDGSLVES HNNNGVVVVD DLRTGHVGFS DLEPPDGIDF DTHEAAYTFY 60 QEYAKSMGFT TSIKNSRRSK KTKDFIDAKF ACSRYGATPE SETGSSSSGR RSSSVKKTDC 120 KASMHVKRKS DGRWIIHEFI KEHNHELLPA LAYHFRIQRN IKLAEKNNID ILHAVSERTR 180 KMYVEMSRQS GGFKNNLGLV NNSQVDKGRS WTSDQFDMRW WKMVSRFGLE SDEWLLWLHE 240 HRQKWVPTFM SDVFLAGMST SQRAESVNSF FDKYVHKKIT LKEFLRQYGV MLQNRYEEES 300 VADFDTCHKQ PALKSPSPWE KQMAATYTHT IFKKFQVEVL GVVACHPRKE KEDENMVTFM 360 VQDCEKDDEF LGQPEASQML ESQQSLQPME NISSEGMSIS GYYGPQQNVQ GLLNLMEPPH 420 EGYYVNQRTI QGLGQLNSLA PVQDSFFTNQ QAIPGLGQMD FRPPPNFTYN LQDEHLRSAQ 480 FPGSSSRQL

Sequence ? help Back to Top

Protein Sequence Length: 489 aa Download sequence Send to blast

MDLQESNNNN QMSDGSLVES HNNNGVVVVD DLRTGHVGFS DLEPPDGIDF DTHEAAYTFY  60
QEYAKSMGFT TSIKNSRRSK KTKDFIDAKF ACSRYGATPE SETGSSSSGR RSSSVKKTDC  120
KASMHVKRKS DGRWIIHEFI KEHNHELLPA LAYHFRIQRN IKLAEKNNID ILHAVSERTR  180
KMYVEMSRQS GGFKNNLGLV NNSQVDKGRS WTSDQFDMRW WKMVSRFGLE SDEWLLWLHE  240
HRQKWVPTFM SDVFLAGMST SQRAESVNSF FDKYVHKKIT LKEFLRQYGV MLQNRYEEES  300
VADFDTCHKQ PALKSPSPWE KQMAATYTHT IFKKFQVEVL GVVACHPRKE KEDENMVTFM  360
VQDCEKDDEF LGQPEASQML ESQQSLQPME NISSEGMSIS GYYGPQQNVQ GLLNLMEPPH  420
EGYYVNQRTI QGLGQLNSLA PVQDSFFTNQ QAIPGLGQMD FRPPPNFTYN LQDEHLRSAQ  480
FPGSSSRQL

Functional Description ? help Back to Top
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. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:12753585, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:22634759}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated after exposure to far-red light. Subject to a negative feedback regulation by PHYA signaling. {ECO:0000269\|PubMed:18033885}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023635512.1	1e-176	protein FAR-RED IMPAIRED RESPONSE 1
Swissprot	Q9SWG3	1e-106	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A2P5RM37	1e-176	A0A2P5RM37_GOSBA; Uncharacterized protein
STRING	Bra040696.1-P	1e-108	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM118	26	253

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G15090.1	1e-108	FAR1 family protein

Publications ? help Back to Top
Domergue F, et al. Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition. Plant Physiol., 2010. 153(4): p. 1539-54 [PMID:20571114] Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Wang C, et al. SCAB3 Is Required for Reorganization of Actin Filaments during Light Quality Changes. J Genet Genomics, 2015. 42(4): p. 161-8 [PMID:25953354] Wang W, et al. A pair of light signaling factors FHY3 and FAR1 regulates plant immunity by modulating chlorophyll biosynthesis. J Integr Plant Biol, 2016. 58(1): p. 91-103 [PMID:25989254] Ma L, et al. Arabidopsis FHY3 and FAR1 Regulate Light-Induced myo-Inositol Biosynthesis and Oxidative Stress Responses by Transcriptional Activation of MIPS1. Mol Plant, 2016. 9(4): p. 541-57 [PMID:26714049] Siddiqui H,Khan S,Rhodes BM,Devlin PF FHY3 and FAR1 Act Downstream of Light Stable Phytochromes. Front Plant Sci, 2016. 7: p. 175 [PMID:26941752] Liu L,Li B,Liu X FAR-RED ELONGATED HYPOCOTYL3 promotes floral meristem determinacy in Arabidopsis. Plant Signal Behav, 2016. 11(10): p. e1238545 [PMID:27660915] Ma L,Xue N,Fu X,Zhang H,Li G Arabidopsis thaliana FAR-RED ELONGATED HYPOCOTYLS3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1) modulate starch synthesis in response to light and sugar. New Phytol., 2017. 213(4): p. 1682-1696 [PMID:27859295] Liu Y, et al. Light and Ethylene Coordinately Regulate the Phosphate Starvation Response through Transcriptional Regulation of PHOSPHATE STARVATION RESPONSE1. Plant Cell, 2017. 29(9): p. 2269-2284 [PMID:28842534] Joly-Lopez Z, et al. Abiotic Stress Phenotypes Are Associated with Conserved Genes Derived from Transposable Elements. Front Plant Sci, 2017. 8: p. 2027 [PMID:29250089]