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

XP_013591899.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

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

Family

FAR1

Protein Properties

Length: 817aa MW: 94349.2 Da PI: 7.6889

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013591899.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	89.5	4.6e-28	62	150	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 fY++YAk++GF++++++s++sk+++ +++++f Cs++g++ e+++ +++ r++++++t+Cka+++vk+++dg+w ++++ +eHnHel p XP_013591899.1 62 FYQDYAKSMGFTTSIKNSRRSKKTKDFIDAKFACSRYGSTPESESG-SSSGRRSSVKKTDCKASMHVKRKSDGRWIIHEFIKEHNHELLP 150 **************************************999998.888889999*****************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.1E-25	62	150	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	2.0E-25	271	364	IPR018289	MULE transposase domain
PROSITE profile	PS50966	8.716	551	587	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	7.2E-6	553	586	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	2.1E-5	562	589	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: 817 aa Download sequence Send to blast
MDLQESNNNQ MSDANMVESH NNNEDVGGVI VDDLRTGGHL GALDLEPRDG IAFDTHEAAY 60 TFYQDYAKSM GFTTSIKNSR RSKKTKDFID AKFACSRYGS TPESESGSSS GRRSSVKKTD 120 CKASMHVKRK SDGRWIIHEF IKEHNHELLP ALAYHFRIQR NIKLAEKNNI DILHAVSERT 180 RKMYVEMSRQ SGGYKNNKGL LLLQTSEVDK GRRCLALEEG ESQLLLEYFK RIKKENPRFF 240 YAIDLNEEQR LRNLFWADAK SRDDYVSFND VVSFDTTYVK FNDKLPLALF IGVNHHSQPM 300 LLGCGLVADE STETFAWLIK TWLRAMGARA PKVILTDQDK LLMAAVSELL PNTRHCFALW 360 HVLEKLPEYF SHVMKRHENF LRKFNKCIFR SWTSDQFDMR WWKMVSQFGL ENDEWLLWLH 420 EHRQKWVPTF MSEVFLAGMS TSQRAESVNS FFDKYVHKKI TLKEFLRLYG VMLQNRYEEE 480 SVADFDTCHK QPALKSPSPW EKQMAATYTH TIFKKFQVEV LGVVACHPRK EKEDENMVTF 540 RVQDCEKDDE FLVTWSKTQS ELCCFCYMFE YKGFLCRHAL MILQMCGFAS VPPRYILKRW 600 TKDAKSGGAD QIQTRVQRYN DLCCRAIELS EEGCVSEENY NIVLRTLVET LKNCVDLNHA 660 RNNFAESNSQ LNNGAHEEEN HVLAAVKATK KKTVVRKRKG QPEASQMLES QPSLQPMENI 720 SSEGMSMSGY YGPQQNVQGL LNLMEPPHEG YYVNQRTIQG LGQLNSIAPV QDSFFTNQQA 780 MPGLGQMDFR PPPNFAYNLQ DEHLRSAQLP GSSSRQL

Sequence ? help Back to Top

Protein Sequence Length: 817 aa Download sequence Send to blast

MDLQESNNNQ MSDANMVESH NNNEDVGGVI VDDLRTGGHL GALDLEPRDG IAFDTHEAAY  60
TFYQDYAKSM GFTTSIKNSR RSKKTKDFID AKFACSRYGS TPESESGSSS GRRSSVKKTD  120
CKASMHVKRK SDGRWIIHEF IKEHNHELLP ALAYHFRIQR NIKLAEKNNI DILHAVSERT  180
RKMYVEMSRQ SGGYKNNKGL LLLQTSEVDK GRRCLALEEG ESQLLLEYFK RIKKENPRFF  240
YAIDLNEEQR LRNLFWADAK SRDDYVSFND VVSFDTTYVK FNDKLPLALF IGVNHHSQPM  300
LLGCGLVADE STETFAWLIK TWLRAMGARA PKVILTDQDK LLMAAVSELL PNTRHCFALW  360
HVLEKLPEYF SHVMKRHENF LRKFNKCIFR SWTSDQFDMR WWKMVSQFGL ENDEWLLWLH  420
EHRQKWVPTF MSEVFLAGMS TSQRAESVNS FFDKYVHKKI TLKEFLRLYG VMLQNRYEEE  480
SVADFDTCHK QPALKSPSPW EKQMAATYTH TIFKKFQVEV LGVVACHPRK EKEDENMVTF  540
RVQDCEKDDE FLVTWSKTQS ELCCFCYMFE YKGFLCRHAL MILQMCGFAS VPPRYILKRW  600
TKDAKSGGAD QIQTRVQRYN DLCCRAIELS EEGCVSEENY NIVLRTLVET LKNCVDLNHA  660
RNNFAESNSQ LNNGAHEEEN HVLAAVKATK KKTVVRKRKG QPEASQMLES QPSLQPMENI  720
SSEGMSMSGY YGPQQNVQGL LNLMEPPHEG YYVNQRTIQG LGQLNSIAPV QDSFFTNQQA  780
MPGLGQMDFR PPPNFAYNLQ DEHLRSAQLP GSSSRQL

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	XP_013591899.1

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	AY078941	0.0	AY078941.1 Arabidopsis thaliana AT4g15090/dl3590w mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013591899.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_013702274.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1-like
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A0D3CSJ4	0.0	A0A0D3CSJ4_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6G8H5	0.0	A0A3P6G8H5_BRAOL; Uncharacterized protein
STRING	Bo6g054750.1	0.0	(Brassica oleracea)

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]