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

maker-scaffold08668-snap-gene-0.14-mRNA-1

Organism

Castanea mollissima

Taxonomic ID

60419

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea

Family

FAR1

Protein Properties

Length: 424aa MW: 47994.6 Da PI: 7.8294

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
maker-scaffold08668-snap-gene-0.14-mRNA-1	genome	THGP	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	84.2	2e-26	72	180	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk..................tek 50 +fY+eYAk+vGF v++++s++s+ +g++++++f C+++g+++e+k + +++ maker-scaffold08668-snap-gene-0.14-mRNA-1 72 SFYREYAKSVGFAVVIKASRRSRISGKFIDAKFACTRYGSKRERKADetmepdsniestmnipvkRRR 139 5*****************************************9999**********887777 PP FAR1 51 errtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 r + + ++t+Cka+++vk ++dg w ++++ +eHnHe++p maker-scaffold08668-snap-gene-0.14-mRNA-1 140 GRINLSWSKTDCKACMHVKTRQDGLWIISSFIKEHNHEIFP 180 7779999*****************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	4.0E-24	72	180	IPR004330	FAR1 DNA binding domain

Sequence ? help Back to Top
Protein Sequence Length: 424 aa Download sequence Send to blast
MVHGGDEVHD RDRLIIKSPN VANKENTGPN VNSRILDSRN KENAGEDINL NSFKSLEPHD 60 GMEFESKEEA FSFYREYAKS VGFAVVIKAS RRSRISGKFI DAKFACTRYG SKRERKADET 120 MEPDSNIEST MNIPVKRRRG RINLSWSKTD CKACMHVKTR QDGLWIISSF IKEHNHEIFP 180 DQAYYFRGHR NLDLGSSNVD ALHAIRARTK KMFATMSRQS GGYKKLATLY THAIFKKFQN 240 EVLGVVACHP RKESEDGSTI TFRVQDFEEN QDFIVVWNET TSDIACLCRS LSQETYNIAL 300 NALEEALRKC ESVNNSLQSL IEPSSPSTHA PQGIEEVNQG NSTSNTNRKN SASKKRQVHP 360 EPEVISIGTH DSWPQMGHAN LRAPALDCSY ESQERMQGME QLNSRAAALD GYFSTQQLVQ 420 GMEQ

Sequence ? help Back to Top

Protein Sequence Length: 424 aa Download sequence Send to blast

MVHGGDEVHD RDRLIIKSPN VANKENTGPN VNSRILDSRN KENAGEDINL NSFKSLEPHD  60
GMEFESKEEA FSFYREYAKS VGFAVVIKAS RRSRISGKFI DAKFACTRYG SKRERKADET  120
MEPDSNIEST MNIPVKRRRG RINLSWSKTD CKACMHVKTR QDGLWIISSF IKEHNHEIFP  180
DQAYYFRGHR NLDLGSSNVD ALHAIRARTK KMFATMSRQS GGYKKLATLY THAIFKKFQN  240
EVLGVVACHP RKESEDGSTI TFRVQDFEEN QDFIVVWNET TSDIACLCRS LSQETYNIAL  300
NALEEALRKC ESVNNSLQSL IEPSSPSTHA PQGIEEVNQG NSTSNTNRKN SASKKRQVHP  360
EPEVISIGTH DSWPQMGHAN LRAPALDCSY ESQERMQGME QLNSRAAALD GYFSTQQLVQ  420
GMEQ

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AM470929	7e-54	AM470929.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X242953.8, clone ENTAV 115.
GenBank	FQ380691	7e-54	FQ380691.1 Vitis vinifera clone SS0ACG39YP03.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023892152.1	1e-152	protein FAR-RED IMPAIRED RESPONSE 1-like
Refseq	XP_023892153.1	1e-152	protein FAR-RED IMPAIRED RESPONSE 1-like
Refseq	XP_023892154.1	1e-152	protein FAR-RED IMPAIRED RESPONSE 1-like
Swissprot	Q9SWG3	2e-45	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A2N9ITN8	1e-135	A0A2N9ITN8_FAGSY; Uncharacterized protein
STRING	VIT_01s0011g01470.t01	1e-111	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF40	30	530

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G15090.1	6e-48	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]