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

Csa01g025390.1

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: 720aa MW: 80865.6 Da PI: 8.2339

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa01g025390.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	81.2	1.9e-25	212	314	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerr....traetrtgCkaklkvkkekdgkwevt 79 +fY+eY++ +GF++ +++s++sk+++e+++++f Cs++g+++e +k+ +r+ +t+Cka+++vk++ dgkw+++ Csa01g025390.1 212 SFYQEYSRAIGFNTAIQNSRRSKTTREFIDAKFACSRYGTKREYDKSfnrprarqskqdP----DnmagRRTCAKTDCKASMHVKRRPDGKWVIH 302 5*****************************************9999999876654433....1455599999***************** PP FAR1 80 kleleHnHelap 91 +++ eHnHel p Csa01g025390.1 303 SFVREHNHELLP 314 *******975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	2.9E-23	212	314	IPR004330	FAR1 DNA binding domain

Sequence ? help Back to Top
Protein Sequence Length: 720 aa Download sequence Send to blast
MTERRNPRKL KDERIRGSSA HSLPQIACTP LTKFFFSSSL LPSSLYLPFS QIETPTRTLL 60 ARAFFFFFFF LDSSPSSSRL QKERCFSQFL FSIRLLLRIS SLFRTRKIGK ISFVMDIDLR 120 LHSGDLCKGD DDEDRGLDNV LQNDHKLHDA AAADEEEDID IGKIEDVTVE VHTDDSLGMS 180 LPAGDLVDYT DGMMNLEPLN GMEFESHGEA YSFYQEYSRA IGFNTAIQNS RRSKTTREFI 240 DAKFACSRYG TKREYDKSFN RPRARQSKQD PDNMAGRRTC AKTDCKASMH VKRRPDGKWV 300 IHSFVREHNH ELLPAQAVSE QTRKIYAAMA KQCEEEAKAD SETWNKQPAL KSPSPFEKSV 360 SEVYTPAVFK KFQIEVLGAI ACSPREEGRD ATCSNFRLNE EASLSQESYN IAFGAIEGAL 420 GNCAGINTSG RSLPDVVTSP TQGLISVEED NQSRNTGKTS KKKNPTKKRK VNSEPECRHL 480 SSIPSQYILK RWTKDAKSRH FSGEPQQLQT RMLRYNDLCQ RALKLNEEAS LSQESYNIAF 540 GAIEGALGNC AGINTSGRSL PDVVTSPTQG LISVEEDNQS RNTGKTSKKK NPTKKRKVNS 600 EPEVMPVAPP ESLQQMDKLS PRTVSIESYY GTQQSVQGMV QLNLMGPTRD NFYGNQQTMQ 660 GLRQLNSLAP SYDSYYGGAQ QGIHGPGVEF FRPSSYPYDI RDDPNVRTTQ LHEDASRHS*

Sequence ? help Back to Top

Protein Sequence Length: 720 aa Download sequence Send to blast

MTERRNPRKL KDERIRGSSA HSLPQIACTP LTKFFFSSSL LPSSLYLPFS QIETPTRTLL  60
ARAFFFFFFF LDSSPSSSRL QKERCFSQFL FSIRLLLRIS SLFRTRKIGK ISFVMDIDLR  120
LHSGDLCKGD DDEDRGLDNV LQNDHKLHDA AAADEEEDID IGKIEDVTVE VHTDDSLGMS  180
LPAGDLVDYT DGMMNLEPLN GMEFESHGEA YSFYQEYSRA IGFNTAIQNS RRSKTTREFI  240
DAKFACSRYG TKREYDKSFN RPRARQSKQD PDNMAGRRTC AKTDCKASMH VKRRPDGKWV  300
IHSFVREHNH ELLPAQAVSE QTRKIYAAMA KQCEEEAKAD SETWNKQPAL KSPSPFEKSV  360
SEVYTPAVFK KFQIEVLGAI ACSPREEGRD ATCSNFRLNE EASLSQESYN IAFGAIEGAL  420
GNCAGINTSG RSLPDVVTSP TQGLISVEED NQSRNTGKTS KKKNPTKKRK VNSEPECRHL  480
SSIPSQYILK RWTKDAKSRH FSGEPQQLQT RMLRYNDLCQ RALKLNEEAS LSQESYNIAF  540
GAIEGALGNC AGINTSGRSL PDVVTSPTQG LISVEEDNQS RNTGKTSKKK NPTKKRKVNS  600
EPEVMPVAPP ESLQQMDKLS PRTVSIESYY GTQQSVQGMV QLNLMGPTRD NFYGNQQTMQ  660
GLRQLNSLAP SYDSYYGGAQ QGIHGPGVEF FRPSSYPYDI RDDPNVRTTQ LHEDASRHS*

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. When associated with PHYA, protects it from being recognized and degraded by the COP1/SPA complex. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:12753585, ECO:0000269\|PubMed:17012604, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:18715961, ECO:0000269\|PubMed:22634759}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa01g025390.1

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. Up-regulated by white light. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:22634759}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP001306	0.0	AP001306.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone:MKA23.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010511011.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
Refseq	XP_010511016.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A178VJL5	0.0	A0A178VJL5_ARATH; FHY3
STRING	XP_010511011.1	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
AT3G22170.2	1e-139	far-red elongated hypocotyls 3

Publications ? help Back to Top
Chang N,Gao Y,Zhao L,Liu X,Gao H Arabidopsis FHY3/CPD45 regulates far-red light signaling and chloroplast division in parallel. Sci Rep, 2015. 5: p. 9612 [PMID:25872642] 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] Li D, et al. FAR-RED ELONGATED HYPOCOTYL3 activates SEPALLATA2 but inhibits CLAVATA3 to regulate meristem determinacy and maintenance in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9375-80 [PMID:27469166] 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]