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

Araha.17880s0001.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

Taxonomic Lineage

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

Family

FAR1

Protein Properties

Length: 674aa MW: 78419.3 Da PI: 6.9854

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.17880s0001.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	90.9	1.7e-28	66	154	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHela 90 fY+eYAk++GF++++++s++sk+++ +++++f Cs++g + e++++ +++r++++++t+Cka+++vk++ dgkw +++++++HnHel Araha.17880s0001.1.p 66 FYQEYAKSMGFTTSIKNSRRSKKTKDFIDAKFACSRYGVTPESESS-GSSSRRSTVKKTDCKASMHVKRKPDGKWIIHEFVKDHNHELL 153 9*************************************999998.9999999*******************************97 PP FAR1 91 p 91 p Araha.17880s0001.1.p 154 P 154 5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	2.8E-26	66	154	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	1.0E-25	275	368	IPR018289	MULE transposase domain
PROSITE profile	PS50966	8.939	555	591	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	7.5E-7	557	590	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	3.1E-7	566	593	IPR006564	Zinc finger, PMZ-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
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: 674 aa Download sequence Send to blast
MDLQENLVSD AGDEHMVDIV VEPHSNRDIG IVDEFNLGGD VGFSGDLDLE PRNGIDFETH 60 EAAYIFYQEY AKSMGFTTSI KNSRRSKKTK DFIDAKFACS RYGVTPESES SGSSSRRSTV 120 KKTDCKASMH VKRKPDGKWI IHEFVKDHNH ELLPALAYHF RIQRNVKLAE KNNIDILHAV 180 SERTKKMYVE MSRQSGGYKN IGPLLQTDVS SQVDKGRYLA LEDGDSQVLL EYFKRIKKEN 240 PKFFYAIDLN EDQRLRNLFW ADAKSRDDYL SFNDVVSFDT TYVKFNDKLP LALFIGVNHH 300 SQPMLLGCAL VADESMETFV WLIKTWLRAM SGRAPKVILT DQDKFLMSAV SELLPNTRHC 360 FALWHVLEKI PEYFSHVMKQ HENFLQKFNK CIFRSWTDDE FDMRWWKMVS QFGLENDEWL 420 LWLHEHRQKW VPTFMSNVFL AGMSTSQRSE SVNSFFDKYV HKKITLKEFL RQYGAILQNR 480 YEEESVADFD TCHKQPALKS PSPWEKQMAT TYTHTIFKKF QVEVLGVVAC HPRKEKEDEN 540 MATFRVQDCE KDDDFLVTWS KTKSELCCFC RMFEYKGFLC RHALMILQMC GFASIPPRYI 600 LKRWTKDAKS GVLAGEGADQ IQTRVQRYND LCSRAIELSE EGCVSEENYN IVLRTLVETL 660 KNCVDMNNAR NNIT

Sequence ? help Back to Top

Protein Sequence Length: 674 aa Download sequence Send to blast

MDLQENLVSD AGDEHMVDIV VEPHSNRDIG IVDEFNLGGD VGFSGDLDLE PRNGIDFETH  60
EAAYIFYQEY AKSMGFTTSI KNSRRSKKTK DFIDAKFACS RYGVTPESES SGSSSRRSTV  120
KKTDCKASMH VKRKPDGKWI IHEFVKDHNH ELLPALAYHF RIQRNVKLAE KNNIDILHAV  180
SERTKKMYVE MSRQSGGYKN IGPLLQTDVS SQVDKGRYLA LEDGDSQVLL EYFKRIKKEN  240
PKFFYAIDLN EDQRLRNLFW ADAKSRDDYL SFNDVVSFDT TYVKFNDKLP LALFIGVNHH  300
SQPMLLGCAL VADESMETFV WLIKTWLRAM SGRAPKVILT DQDKFLMSAV SELLPNTRHC  360
FALWHVLEKI PEYFSHVMKQ HENFLQKFNK CIFRSWTDDE FDMRWWKMVS QFGLENDEWL  420
LWLHEHRQKW VPTFMSNVFL AGMSTSQRSE SVNSFFDKYV HKKITLKEFL RQYGAILQNR  480
YEEESVADFD TCHKQPALKS PSPWEKQMAT TYTHTIFKKF QVEVLGVVAC HPRKEKEDEN  540
MATFRVQDCE KDDDFLVTWS KTKSELCCFC RMFEYKGFLC RHALMILQMC GFASIPPRYI  600
LKRWTKDAKS GVLAGEGADQ IQTRVQRYND LCSRAIELSE EGCVSEENYN IVLRTLVETL  660
KNCVDMNNAR NNIT

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	Araha.17880s0001.1.p

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF159587	0.0	AF159587.1 Arabidopsis thaliana far-red impaired response protein (FAR1) mRNA, complete cds.
GenBank	CP002687	0.0	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020874483.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1 isoform X1
Refseq	XP_020874484.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1 isoform X2
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A178UY59	0.0	A0A178UY59_ARATH; FAR1
STRING	AT4G15090.1	0.0	(Arabidopsis thaliana)

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	0.0	FAR1 family protein

Link Out ? help Back to Top
Phytozome	Araha.17880s0001.1.p

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]