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

Csa00430s030.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

FAR1

Protein Properties

Length: 828aa MW: 95093.7 Da PI: 6.8386

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa00430s030.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	89.2	5.7e-28	68	155	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 fY+eYAk++GF++++++s++sk+++e+++++f Cs++g + e++ + +++r+++ ++t+Cka+++vk++ dgkw ++++ ++HnHel p Csa00430s030.1 68 FYQEYAKSMGFTTSIKNSRRSKKTKEFIDAKFACSRYGVTPETEGS--SSSRRSSIKKTDCKASMHVKRRPDGKWIIHEFIKDHNHELLP 155 9*************************************999888..8999999******************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	8.3E-26	68	155	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	4.2E-25	276	368	IPR018289	MULE transposase domain
Pfam	PF04434	8.6E-8	556	591	IPR007527	Zinc finger, SWIM-type
PROSITE profile	PS50966	9.038	556	592	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	2.3E-7	567	594	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: 828 aa Download sequence Send to blast
MDLQENQVSD HAGDECMVDI MVDSSSSRDV GIADDLKAGG DLGFSGDVQD HEPRNGINFE 60 SNDAAYLFYQ EYAKSMGFTT SIKNSRRSKK TKEFIDAKFA CSRYGVTPET EGSSSSRRSS 120 IKKTDCKASM HVKRRPDGKW IIHEFIKDHN HELLPALAYH FRIQRNVKLA EKNNIDILHA 180 VSERTRKMYV EMSRQSGGYK NNGPLLQSDV NSQVGKGRYL ALEEGDSQVL LEYFKRIKKE 240 NPKFFYAIDL NEEQRLRNLF WADAKSRDDY LSFNDVVSFD TTYVKFNDKL PLALFIGVNH 300 HSQPMLLGCA LVADESKETF VWLIKTWLRA MGGRAPSAIL TDQDKFLMAA VSELLPNTRH 360 CIALWHVIEK IPEYFSIVMK RHENFLKKFN ECIFRSWTDD EFDMRWWKMV SQFGLENDEW 420 LLWLHEHRQK WVPTFMSGVF LAGMSTSQRS ESVNAFFDKY VHKKITLKEF LRQYGAILQN 480 RYEEESVADF DTCHKQPALK SPSPWEKQMA TTYTHTIFKK FQVEVLGVVA CHPRKEKEDD 540 NMATFRVQDV EKDDEFLVTW SKSKSELCCF CRMFEYKGYL CRHALMILQM CGFASIPPQY 600 ILKRWTKDAK SGVLAGEGAD QIQTRVQRYN DLCSRAIELS EEGCVSEENY NIVLRTLVET 660 LKNCVDLNNA RNSMIESSSQ LNNGAHEEES QEMSGVKATK KKTVCRKRKG QQEADQMLES 720 QQSLQPMETI SSEGMGMNGY YGPQQNGQGL LNLMEPPHEG YYVNQRTIQG LGQLNSIAPV 780 QDSFFANQQA MPGLGQMDFR PPPNFNYNLQ EEHLRSAQLP GNSSRQL*

Sequence ? help Back to Top

Protein Sequence Length: 828 aa Download sequence Send to blast

MDLQENQVSD HAGDECMVDI MVDSSSSRDV GIADDLKAGG DLGFSGDVQD HEPRNGINFE  60
SNDAAYLFYQ EYAKSMGFTT SIKNSRRSKK TKEFIDAKFA CSRYGVTPET EGSSSSRRSS  120
IKKTDCKASM HVKRRPDGKW IIHEFIKDHN HELLPALAYH FRIQRNVKLA EKNNIDILHA  180
VSERTRKMYV EMSRQSGGYK NNGPLLQSDV NSQVGKGRYL ALEEGDSQVL LEYFKRIKKE  240
NPKFFYAIDL NEEQRLRNLF WADAKSRDDY LSFNDVVSFD TTYVKFNDKL PLALFIGVNH  300
HSQPMLLGCA LVADESKETF VWLIKTWLRA MGGRAPSAIL TDQDKFLMAA VSELLPNTRH  360
CIALWHVIEK IPEYFSIVMK RHENFLKKFN ECIFRSWTDD EFDMRWWKMV SQFGLENDEW  420
LLWLHEHRQK WVPTFMSGVF LAGMSTSQRS ESVNAFFDKY VHKKITLKEF LRQYGAILQN  480
RYEEESVADF DTCHKQPALK SPSPWEKQMA TTYTHTIFKK FQVEVLGVVA CHPRKEKEDD  540
NMATFRVQDV EKDDEFLVTW SKSKSELCCF CRMFEYKGYL CRHALMILQM CGFASIPPQY  600
ILKRWTKDAK SGVLAGEGAD QIQTRVQRYN DLCSRAIELS EEGCVSEENY NIVLRTLVET  660
LKNCVDLNNA RNSMIESSSQ LNNGAHEEES QEMSGVKATK KKTVCRKRKG QQEADQMLES  720
QQSLQPMETI SSEGMGMNGY YGPQQNGQGL LNLMEPPHEG YYVNQRTIQG LGQLNSIAPV  780
QDSFFANQQA MPGLGQMDFR PPPNFNYNLQ EEHLRSAQLP GNSSRQL*

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	Csa00430s030.1

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 -- 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.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010495886.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1-like
Refseq	XP_010495887.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1-like
Refseq	XP_010495888.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1-like
Refseq	XP_010495889.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1-like
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A178UYQ0	0.0	A0A178UYQ0_ARATH; FAR1
STRING	XP_010495886.1	0.0	(Camelina sativa)

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

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]