PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Potri.016G018300.6

Common Name

POPTR_0016s01980g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

FAR1

Protein Properties

Length: 844aa MW: 96537.5 Da PI: 7.4571

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.016G018300.6	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	85.1	1.1e-26	85	186	1	90
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevt 79 +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ e+ ++r+ ++t+Cka+++vk++ dgkw+++ Potri.016G018300.6 85 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSfnrprsrqtkqdPENGTSRRSCSKTDCKASMHVKRRPDGKWVIH 175 5*****************************************9999999998877766666679999****************** PP FAR1 80 kleleHnHela 90 ++++eHnH l Potri.016G018300.6 176 SFVKEHNHGLL 186 ******997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.4E-24	85	187	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	3.7E-29	285	376	IPR018289	MULE transposase domain
PROSITE profile	PS50966	9.273	565	601	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.7E-7	576	603	IPR006564	Zinc finger, PMZ-type
Pfam	PF04434	1.8E-4	577	600	IPR007527	Zinc finger, SWIM-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009585	Biological Process	red, far-red light phototransduction
GO:0010018	Biological Process	far-red light signaling pathway
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
Protein Sequence Length: 844 aa Download sequence Send to blast
MDIDLRLPSG DHDKEGEEPN VNNMLSEVKL HNGDAETGNV VDVAEEILSI EGGDVNSPTP 60 TTFKEDTNLE PLSGMEFESH GAAYSFYQEY ARSMGFNTAI QNSRRSKTSR EFIDAKFACS 120 RYGTKREYDK SFNRPRSRQT KQDPENGTSR RSCSKTDCKA SMHVKRRPDG KWVIHSFVKE 180 HNHGLLPAQA VSEQTRRMYA AMAQQFAEYK NVAGLKNDPK NSFDKGRNLG LEAGETKILL 240 DFFTKMQNMN SNFFYAVDLG EDQRLKNLFW ADAKSRHDYG NFSDVVSFDT TYVRNKYKMP 300 LALFVGVNQH YQFMLLGCAL ISDESAATYS WLMQTWLRAM GGQTPKVIIT DQDKAMKLVI 360 SEVFPSAHHC FFLWNILGKV SENLGSVIKQ NENFMAKFDK CIFRSWTENE FGKRWWKILD 420 RFELRENEWM QSLYEDREQW VPIYMRGAFL AGMSTVLRSE STNSHFDKHV HKKTTVQEFV 480 RQYEPILQDR YEEEAKADSD TWNKQPSLKS PSPLEKSVSG VYTHAVFKKF QVEVLGVVAC 540 HPKMESQDEI SVSFRVQDLE KHQDFTVLWN QMRLEVSCIC RLYEYKGFLC RHALVVLQMC 600 QQSAIPSQYI LKRWTKDAKS KHLLGEESEK VQSRVQRYND LCQRALKLSE EASLSQESYN 660 IAFRALGEVF GNCISMNNSN KSLVEAGTST THGLLCIEDD NQNRSMTKTN KKKNQAKKRK 720 VNSEQEITTD GPQDSLQQMD KLSSRAVALE GYYGTQQGVP GMVQLNLMAP TRDNYYSNQQ 780 TIQGLGQLNS IAPSHDGYYG TQQSMNGLGQ MDFFRTPTGF AYSIRDDPNV RTAQLHDDGS 840 RHA*

Sequence ? help Back to Top

Protein Sequence Length: 844 aa Download sequence Send to blast

MDIDLRLPSG DHDKEGEEPN VNNMLSEVKL HNGDAETGNV VDVAEEILSI EGGDVNSPTP  60
TTFKEDTNLE PLSGMEFESH GAAYSFYQEY ARSMGFNTAI QNSRRSKTSR EFIDAKFACS  120
RYGTKREYDK SFNRPRSRQT KQDPENGTSR RSCSKTDCKA SMHVKRRPDG KWVIHSFVKE  180
HNHGLLPAQA VSEQTRRMYA AMAQQFAEYK NVAGLKNDPK NSFDKGRNLG LEAGETKILL  240
DFFTKMQNMN SNFFYAVDLG EDQRLKNLFW ADAKSRHDYG NFSDVVSFDT TYVRNKYKMP  300
LALFVGVNQH YQFMLLGCAL ISDESAATYS WLMQTWLRAM GGQTPKVIIT DQDKAMKLVI  360
SEVFPSAHHC FFLWNILGKV SENLGSVIKQ NENFMAKFDK CIFRSWTENE FGKRWWKILD  420
RFELRENEWM QSLYEDREQW VPIYMRGAFL AGMSTVLRSE STNSHFDKHV HKKTTVQEFV  480
RQYEPILQDR YEEEAKADSD TWNKQPSLKS PSPLEKSVSG VYTHAVFKKF QVEVLGVVAC  540
HPKMESQDEI SVSFRVQDLE KHQDFTVLWN QMRLEVSCIC RLYEYKGFLC RHALVVLQMC  600
QQSAIPSQYI LKRWTKDAKS KHLLGEESEK VQSRVQRYND LCQRALKLSE EASLSQESYN  660
IAFRALGEVF GNCISMNNSN KSLVEAGTST THGLLCIEDD NQNRSMTKTN KKKNQAKKRK  720
VNSEQEITTD GPQDSLQQMD KLSSRAVALE GYYGTQQGVP GMVQLNLMAP TRDNYYSNQQ  780
TIQGLGQLNS IAPSHDGYYG TQQSMNGLGQ MDFFRTPTGF AYSIRDDPNV RTAQLHDDGS  840
RHA*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pth.1132	0.0	bud\| leaf

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. 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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.016G018300.6

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. Up-regulated by white light. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:22634759}.

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	EF148105	0.0	EF148105.1 Populus trichocarpa clone WS0127_J20 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002323176.2	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
Refseq	XP_024443449.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
Refseq	XP_024443450.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A2K1X9A3	0.0	A0A2K1X9A3_POPTR; Uncharacterized protein
STRING	POPTR_0016s01980.1	0.0	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G22170.2	0.0	far-red elongated hypocotyls 3

Link Out ? help Back to Top
Phytozome	Potri.016G018300.6
Entrez Gene	7453722

Publications ? help Back to Top
Chang N,Gao Y,Zhao L,Liu X,Gao H Arabidopsis FHY3/CPD45 regulates far-red light signaling and chloroplast division in parallel. Sci Rep, 2015. 5: p. 9612 [PMID:25872642] 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] Li D, et al. FAR-RED ELONGATED HYPOCOTYL3 activates SEPALLATA2 but inhibits CLAVATA3 to regulate meristem determinacy and maintenance in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9375-80 [PMID:27469166] 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]