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

Gorai.007G173400.3

Common Name

B456_007G173400, LOC105803490

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

FAR1

Protein Properties

Length: 843aa MW: 96756.4 Da PI: 7.136

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.007G173400.3	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	89.1	6.3e-28	79	166	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 +fY+eYAk++GF++++++s++sk+++e+++++f Cs++g + e++ ++r++++++t+Cka+++vk++ dgkw ++++++eHnHel p Gorai.007G173400.3 79 SFYQEYAKSMGFTTSIKNSRRSKKSKEFIDAKFACSRYGVTPESDVG---SSRRSSVKKTDCKASMHVKRRPDGKWIIHEFVKEHNHELLP 166 5**************************************999877...889999******************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	2.3E-25	79	166	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	1.0E-28	286	379	IPR018289	MULE transposase domain
PROSITE profile	PS50966	10.188	566	602	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	6.0E-7	575	601	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.1E-8	577	604	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: 843 aa Download sequence Send to blast
MIKIGENQNA ISNMVDCRDA MPCNDGVNEN MVDIVDETAR SRDSGIVDTS KRAVVGFEGD 60 AEFEPHNGIE FESHEAAYSF YQEYAKSMGF TTSIKNSRRS KKSKEFIDAK FACSRYGVTP 120 ESDVGSSRRS SVKKTDCKAS MHVKRRPDGK WIIHEFVKEH NHELLPALAY HFRIYRNVKL 180 AEKNNIDILN AVSERTRKMY VEMSRQSGGY QNVNMLQSDV KNQFDKGRHL VVDEGDAQIM 240 LEYFKRIKKE NPDFFYAIDL NEEQRLRNLF WVDAKSRNDY PSFNDVVSFD TTYVKFNEKL 300 PFAPFVGVNH HFQSMLLGCA LLADETKPTF VWLMKTWLRA MGGQAPKVII TDQDKELKAA 360 VEEVFPNTRH CFALWHILEK IPKSLAHVIG PHENFLPKFN KCIFKSWTDE EFDMRWSKMI 420 TRFELQDDEW VQSLYEDRKR WVPAFMDNVF LAGMATSQRS ESMNSFFDKY IHKKITLKEF 480 VKQYGAILQN RYEEEAVADF DTWQKQPALR SPSPWEKQMS IVYTHAIFKR FQVEVLGVVG 540 CHPKRENENQ GTIPFRVQDC EKNENFMVIW NEEMSEVSCS CRLFEYKGFL CRHAMIVLQM 600 CGRTSIPPRY ILKRWTKDAK SGQSTTEGTD RVQTRVQRYN DLCKHAIELS EEGSLSEESY 660 NIAFCVLVEA LKNCVNVNNS CISAVESTGH AQGLREAEEK NQGSLASKSS KKKSTNRKRK 720 GQSEPALMFV DTQDSLQPME NLSSDGITLN GYYGAQQNVQ GLVQLNLMEP PHDGYYVNQQ 780 SMQGLGQLNS MAPGHDSFFG TQQSMHGLGQ LDYRPSASFT YALQDESQLR STQLHGGVSR 840 HP*

Sequence ? help Back to Top

Protein Sequence Length: 843 aa Download sequence Send to blast

MIKIGENQNA ISNMVDCRDA MPCNDGVNEN MVDIVDETAR SRDSGIVDTS KRAVVGFEGD  60
AEFEPHNGIE FESHEAAYSF YQEYAKSMGF TTSIKNSRRS KKSKEFIDAK FACSRYGVTP  120
ESDVGSSRRS SVKKTDCKAS MHVKRRPDGK WIIHEFVKEH NHELLPALAY HFRIYRNVKL  180
AEKNNIDILN AVSERTRKMY VEMSRQSGGY QNVNMLQSDV KNQFDKGRHL VVDEGDAQIM  240
LEYFKRIKKE NPDFFYAIDL NEEQRLRNLF WVDAKSRNDY PSFNDVVSFD TTYVKFNEKL  300
PFAPFVGVNH HFQSMLLGCA LLADETKPTF VWLMKTWLRA MGGQAPKVII TDQDKELKAA  360
VEEVFPNTRH CFALWHILEK IPKSLAHVIG PHENFLPKFN KCIFKSWTDE EFDMRWSKMI  420
TRFELQDDEW VQSLYEDRKR WVPAFMDNVF LAGMATSQRS ESMNSFFDKY IHKKITLKEF  480
VKQYGAILQN RYEEEAVADF DTWQKQPALR SPSPWEKQMS IVYTHAIFKR FQVEVLGVVG  540
CHPKRENENQ GTIPFRVQDC EKNENFMVIW NEEMSEVSCS CRLFEYKGFL CRHAMIVLQM  600
CGRTSIPPRY ILKRWTKDAK SGQSTTEGTD RVQTRVQRYN DLCKHAIELS EEGSLSEESY  660
NIAFCVLVEA LKNCVNVNNS CISAVESTGH AQGLREAEEK NQGSLASKSS KKKSTNRKRK  720
GQSEPALMFV DTQDSLQPME NLSSDGITLN GYYGAQQNVQ GLVQLNLMEP PHDGYYVNQQ  780
SMQGLGQLNS MAPGHDSFFG TQQSMHGLGQ LDYRPSASFT YALQDESQLR STQLHGGVSR  840
HP*

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012491160.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_012491161.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_012491162.1	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A0D2SLS3	0.0	A0A0D2SLS3_GOSRA; Uncharacterized protein
STRING	Gorai.007G173400.1	0.0	(Gossypium raimondii)

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	Gorai.007G173400.3
Entrez Gene	105803490

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] Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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]