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

Cucsa.180090.2

Common Name

Csa_4G056770, LOC101210541

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

FAR1

Protein Properties

Length: 809aa MW: 94208 Da PI: 8.0826

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.180090.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	87.1	2.6e-27	47	133	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 fY+eYAk++GF++++++s++sk+++e+++++f Cs++g + e+++ ++r+ ++++t+Cka+++vk++ dg+w ++++ ++HnHel p Cucsa.180090.2 47 FYQEYAKSMGFTTSIKNSRRSKKSKEFIDAKFACSRYGVTPESESG---NSRRPSVKKTDCKASMHVKRRPDGRWIIHEFIKDHNHELLP 133 *************************************9998877...7788899*****************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	5.8E-25	47	133	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	8.3E-25	253	346	IPR018289	MULE transposase domain
PROSITE profile	PS50966	9.371	533	569	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	1.3E-5	542	568	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.3E-7	544	571	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: 809 aa Download sequence Send to blast
MVDVVAEMQD RGGIVSLPKK DILFEGDVDF EPHTGIEFES HEAAYTFYQE YAKSMGFTTS 60 IKNSRRSKKS KEFIDAKFAC SRYGVTPESE SGNSRRPSVK KTDCKASMHV KRRPDGRWII 120 HEFIKDHNHE LLPALAYHFR IHRNVKLAEK NNIDILHAVS ERTRRMYVEM SKQCGGYRNF 180 SFPQIDTTYQ FDKGRYLALD EGDAQMLLEY FKRVQKENPY FFYAIDLNEE QRLRNLFWVD 240 AKSRNDYVSF SDVVSFDISY IKTNDKLPFA PFIGANHHAQ SMVLGCALAA DWTKPTFAWL 300 LKTWLRAMGG KAPKVIITDQ DKALKLAIEE VFPNTRHCFA LWHILEKIPE TLAHVIKRHE 360 NFLAKFNKCI FKSWSDEQFD MRWWKMVTRF ELQDDEWIQS LYGDRKKWVP TYMEDIFLAG 420 MSTTQRSDSM NAFFDKYIHK KITLKEFLRQ YGIILQNRYE EEVIADFDTL HKQPALKSPS 480 PWEKQMSTLY THTIFKKFQV EVLGVVGCRM RKEIEDGTIT TFRVQDCEKD EHFLVRWHKL 540 NSEVSCFCRL FEYKGFLCRH ALIVLQMLDF RSIPSQYILK RWTKDAKSRQ PVTEETEFRQ 600 NRVQRYNDLC KKAIELSEEG SHSEECYNIA IRTLVEALKN CVNINNSKSA PADSCVHAHG 660 LREEEENQGS ITAKANKKKS TNRKRKVQTE TDMILVEAQD NLQPMDSLTS DSMNLTGYYG 720 TQQNVQGLVQ LNLMEPPHDA SYYVSQQSIQ GLGQLNTIAA NHDGFFGVQH NSIHTLVDYR 780 PTTSYSYSLQ EEQHLRSAQL HGSTSRHT*

Sequence ? help Back to Top

Protein Sequence Length: 809 aa Download sequence Send to blast

MVDVVAEMQD RGGIVSLPKK DILFEGDVDF EPHTGIEFES HEAAYTFYQE YAKSMGFTTS  60
IKNSRRSKKS KEFIDAKFAC SRYGVTPESE SGNSRRPSVK KTDCKASMHV KRRPDGRWII  120
HEFIKDHNHE LLPALAYHFR IHRNVKLAEK NNIDILHAVS ERTRRMYVEM SKQCGGYRNF  180
SFPQIDTTYQ FDKGRYLALD EGDAQMLLEY FKRVQKENPY FFYAIDLNEE QRLRNLFWVD  240
AKSRNDYVSF SDVVSFDISY IKTNDKLPFA PFIGANHHAQ SMVLGCALAA DWTKPTFAWL  300
LKTWLRAMGG KAPKVIITDQ DKALKLAIEE VFPNTRHCFA LWHILEKIPE TLAHVIKRHE  360
NFLAKFNKCI FKSWSDEQFD MRWWKMVTRF ELQDDEWIQS LYGDRKKWVP TYMEDIFLAG  420
MSTTQRSDSM NAFFDKYIHK KITLKEFLRQ YGIILQNRYE EEVIADFDTL HKQPALKSPS  480
PWEKQMSTLY THTIFKKFQV EVLGVVGCRM RKEIEDGTIT TFRVQDCEKD EHFLVRWHKL  540
NSEVSCFCRL FEYKGFLCRH ALIVLQMLDF RSIPSQYILK RWTKDAKSRQ PVTEETEFRQ  600
NRVQRYNDLC KKAIELSEEG SHSEECYNIA IRTLVEALKN CVNINNSKSA PADSCVHAHG  660
LREEEENQGS ITAKANKKKS TNRKRKVQTE TDMILVEAQD NLQPMDSLTS DSMNLTGYYG  720
TQQNVQGLVQ LNLMEPPHDA SYYVSQQSIQ GLGQLNTIAA NHDGFFGVQH NSIHTLVDYR  780
PTTSYSYSLQ EEQHLRSAQL HGSTSRHT*

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

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	LN681873	0.0	LN681873.1 Cucumis melo genomic scaffold, anchoredscaffold00027.
GenBank	LN713261	0.0	LN713261.1 Cucumis melo genomic chromosome, chr_7.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004147732.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_011653253.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_011653254.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_011653255.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A0A0KXC8	0.0	A0A0A0KXC8_CUCSA; Uncharacterized protein
STRING	XP_004147732.1	0.0	(Cucumis sativus)

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	Cucsa.180090.2
Entrez Gene	101210541

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] 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] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]