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

676725670

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

FAR1

Protein Properties

Length: 831aa MW: 95962.6 Da PI: 7.4524

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676725670	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	90.3	2.6e-28	70	159	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 +fY+eYAk++GF++++++s++sk+++ +++++f Cs++g + e+++ +++ r++++++t+Cka+++vk++ dgkw ++++++eHnHel p 676725670 70 SFYQEYAKSMGFTTSIKNSRRSKKTKDFIDAKFACSRYGVTPESESG-SSSGRRSSVKKTDCKASMHVKRRPDGKWIIHEFVKEHNHELLP 159 5**************************************999998.888889999*****************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	7.7E-26	70	159	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	4.5E-26	280	373	IPR018289	MULE transposase domain
PROSITE profile	PS50966	8.963	560	596	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	3.9E-6	562	594	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	2.4E-6	571	598	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: 831 aa Download sequence Send to blast
MDLQESNNNH QVSDAGDENM VDVVAESHNN NRDVGVVVDD LRTGDLGFSN GLDLEPRNGI 60 DFDTHEAAYS FYQEYAKSMG FTTSIKNSRR SKKTKDFIDA KFACSRYGVT PESESGSSSG 120 RRSSVKKTDC KASMHVKRRP DGKWIIHEFV KEHNHELLPA LAYHFRIQRN VKLAEKNNID 180 ILHAVSERTR KMYVEMSRQS GGYKNTGLLP QTDVNSQVDK GRYLALEEGD SQVLLEYFKR 240 IKKENPKFFY AIDLNEEQRL RNLFWADAKS RDDYMSFNDV VSFDTTYVKF NDKLPLALFI 300 GVNHHSQPML LGCALVADES KETFVWLIKT WLRAMGGRAP KVILTDQDKI LMAAVSELLP 360 NTRHCFALWH VLEKIPEYFS HVMKRHENFL QKFNKCIFRS WTSDQFDIRW WKMVSRFELD 420 GDEWLLWLHE HRQKWVPTFM SDVFLAGMST SQRSESVNSF FDKYVHKKIT LKEFLRQYGA 480 ILQNRYEEES VADFDTCHKQ PALKSPSPWE KQMATTYTHT IFKKFQVEVL GVVACHPRKE 540 KEDENIATFR VQDCEKDDEF LVTWNKTKSE LCCFCRMFEY KGFLCRHALM ILQICGFASV 600 PPRYILKRWT KDAKNGVLAG DGADQIQNRV QRYNDLCRRA IELSEEGCVS EENYNIVLRT 660 LVETLKNCVD LNNARNNITE SNSQLNNGAH EEENQVMACV KATKKRTVVR KRKGQPEASQ 720 MLESQQSLQP MENISSEGMN ISGYYGPQQN VQGLLNLMEP PHEGYYVNQR TIQGLGQLNS 780 LAPVQDSFFT NQQAMPGLGQ IDFRPPPNFT YNLQDEHLRS AQLPGSSSRQ L

Sequence ? help Back to Top

Protein Sequence Length: 831 aa Download sequence Send to blast

MDLQESNNNH QVSDAGDENM VDVVAESHNN NRDVGVVVDD LRTGDLGFSN GLDLEPRNGI  60
DFDTHEAAYS FYQEYAKSMG FTTSIKNSRR SKKTKDFIDA KFACSRYGVT PESESGSSSG  120
RRSSVKKTDC KASMHVKRRP DGKWIIHEFV KEHNHELLPA LAYHFRIQRN VKLAEKNNID  180
ILHAVSERTR KMYVEMSRQS GGYKNTGLLP QTDVNSQVDK GRYLALEEGD SQVLLEYFKR  240
IKKENPKFFY AIDLNEEQRL RNLFWADAKS RDDYMSFNDV VSFDTTYVKF NDKLPLALFI  300
GVNHHSQPML LGCALVADES KETFVWLIKT WLRAMGGRAP KVILTDQDKI LMAAVSELLP  360
NTRHCFALWH VLEKIPEYFS HVMKRHENFL QKFNKCIFRS WTSDQFDIRW WKMVSRFELD  420
GDEWLLWLHE HRQKWVPTFM SDVFLAGMST SQRSESVNSF FDKYVHKKIT LKEFLRQYGA  480
ILQNRYEEES VADFDTCHKQ PALKSPSPWE KQMATTYTHT IFKKFQVEVL GVVACHPRKE  540
KEDENIATFR VQDCEKDDEF LVTWNKTKSE LCCFCRMFEY KGFLCRHALM ILQICGFASV  600
PPRYILKRWT KDAKNGVLAG DGADQIQNRV QRYNDLCRRA IELSEEGCVS EENYNIVLRT  660
LVETLKNCVD LNNARNNITE SNSQLNNGAH EEENQVMACV KATKKRTVVR KRKGQPEASQ  720
MLESQQSLQP MENISSEGMN ISGYYGPQQN VQGLLNLMEP PHEGYYVNQR TIQGLGQLNS  780
LAPVQDSFFT NQQAMPGLGQ IDFRPPPNFT YNLQDEHLRS AQLPGSSSRQ L

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	676725670

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_006414566.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A1J3JL92	0.0	A0A1J3JL92_NOCCA; Protein FAR-RED IMPAIRED RESPONSE 1
STRING	XP_006414566.1	0.0	(Eutrema salsugineum)

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]