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.006G020600.1

Common Name

POPTR_0006s02140g

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: 843aa MW: 97071 Da PI: 7.1243

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.006G020600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	89.8	3.6e-28	77	164	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 +fY+eYAk++GF++++++s++sk+++e+++++f Cs++g + e+++ ++r++++++t+Cka+++vk++ dgkw ++++++eHnHel p Potri.006G020600.1 77 SFYQEYAKSMGFTTSIKNSRRSKKSKEFIDAKFACSRYGVTPESDSG---NSRRSTVKKTDCKASMHVKRRADGKWIIHEFVKEHNHELLP 164 5**************************************999888...888999******************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.4E-25	77	164	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	1.0E-23	285	377	IPR018289	MULE transposase domain
PROSITE profile	PS50966	9.099	564	600	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	5.8E-4	574	598	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	2.5E-5	575	602	IPR006564	Zinc finger, PMZ-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: 843 aa Download sequence Send to blast
MMTERNHKMI DDMIDLQDNV PADDVVGGNI VGVVDVVHSR DVAVVDSPKR AVAMFEGDVN 60 YELCDGIEFG SHEEAYSFYQ EYAKSMGFTT SIKNSRRSKK SKEFIDAKFA CSRYGVTPES 120 DSGNSRRSTV KKTDCKASMH VKRRADGKWI IHEFVKEHNH ELLPALAYHF RIHRNVKLAE 180 KNNIDILHAV SERTRKMYVE MSRQSGGYQN FGLVKSEMNM QFEKGQHLAL DEGDAQVVLE 240 YFKRVKKENA NFFYAIDLNE EQRLRNLFWV DAKSRADYIS FNDAVCFETF YVKYHEKLPF 300 APFVGVNHHC QPILLGCAFI ADESRSTFVW LMKTWLRAMG GQAPKVIVTD VDKTLKVAIE 360 EVFPNTRHCF SLWHILERLP ETLSHVIKRH ENFLPKFNKC IFKSWTDDRF DMRWWKMVTR 420 FELQDDEWIQ SLYEDRKKWV PTYMGDTFLA GTSATQRSES MSAFFDKYIH RKITMKEFMK 480 QYGTILQNRY EDESVADFDT SHKQPALKSP SPWEKQMSMV YTHAIFKKFQ VEVLGVVGCH 540 PKKESEDGTL VTFRVQDCEK DEHFLVTWNQ TNSEVCCFCH SFEYKGFLCR HALIVLQICG 600 LSNIPPHYIL KRWTKDAKSR QPMAVGTERA QTRVQRYNDL CKLAIEMSEE GSLSEESYNI 660 VLHTLVEALK NCVNVNNCNN SVAESSTYTL THREAEEENQ GSLVTKSSKK KNPVRKRKVQ 720 SDPDVMLVEA PDSLQQMENL SSEGINLGGY YGTQQNVQGL VQLNLMEPPH DGYYVNQQSM 780 QGLGQLNSIA PSHDGFFGTQ QSLHGLGQYD FRPPTGFSYS MQLQDDTHLR SSHMHGSASR 840 HA*

Sequence ? help Back to Top

Protein Sequence Length: 843 aa Download sequence Send to blast

MMTERNHKMI DDMIDLQDNV PADDVVGGNI VGVVDVVHSR DVAVVDSPKR AVAMFEGDVN  60
YELCDGIEFG SHEEAYSFYQ EYAKSMGFTT SIKNSRRSKK SKEFIDAKFA CSRYGVTPES  120
DSGNSRRSTV KKTDCKASMH VKRRADGKWI IHEFVKEHNH ELLPALAYHF RIHRNVKLAE  180
KNNIDILHAV SERTRKMYVE MSRQSGGYQN FGLVKSEMNM QFEKGQHLAL DEGDAQVVLE  240
YFKRVKKENA NFFYAIDLNE EQRLRNLFWV DAKSRADYIS FNDAVCFETF YVKYHEKLPF  300
APFVGVNHHC QPILLGCAFI ADESRSTFVW LMKTWLRAMG GQAPKVIVTD VDKTLKVAIE  360
EVFPNTRHCF SLWHILERLP ETLSHVIKRH ENFLPKFNKC IFKSWTDDRF DMRWWKMVTR  420
FELQDDEWIQ SLYEDRKKWV PTYMGDTFLA GTSATQRSES MSAFFDKYIH RKITMKEFMK  480
QYGTILQNRY EDESVADFDT SHKQPALKSP SPWEKQMSMV YTHAIFKKFQ VEVLGVVGCH  540
PKKESEDGTL VTFRVQDCEK DEHFLVTWNQ TNSEVCCFCH SFEYKGFLCR HALIVLQICG  600
LSNIPPHYIL KRWTKDAKSR QPMAVGTERA QTRVQRYNDL CKLAIEMSEE GSLSEESYNI  660
VLHTLVEALK NCVNVNNCNN SVAESSTYTL THREAEEENQ GSLVTKSSKK KNPVRKRKVQ  720
SDPDVMLVEA PDSLQQMENL SSEGINLGGY YGTQQNVQGL VQLNLMEPPH DGYYVNQQSM  780
QGLGQLNSIA PSHDGFFGTQ QSLHGLGQYD FRPPTGFSYS MQLQDDTHLR SSHMHGSASR  840
HA*

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00434	DAP	Transfer from AT4G15090	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.006G020600.1

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	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024459852.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1 isoform X1
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A2K1ZVH1	0.0	A0A2K1ZVH1_POPTR; Uncharacterized protein
STRING	POPTR_0006s02140.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF40	30	530
Representative plant	OGRP13457	3	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G15090.1	0.0	FAR1 family protein

Link Out ? help Back to Top
Phytozome	Potri.006G020600.1
Entrez Gene	7495635

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]