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

Csa12g074460.1

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

ARF

Protein Properties

Length: 896aa MW: 99313.4 Da PI: 5.9081

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa12g074460.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	73	3.6e-23	242	343	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f+k+lt sd++++g +++p++ ae+ ++++ ++l+ +d++ +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F ++++ Csa12g074460.1 242 FCKTLTASDTSTHGGFSVPRRAAEKVfppldyTLQPPA-QELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFI--RNEK 333 99***************************9666655.49********************************************..5688 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 +l+++++r+ Csa12g074460.1 334 NQLFLGIRRA 343 889*9997 PP
2	Auxin_resp	26.5	2.9e-10	385	410	58	83
Auxin_resp 58 rlsGtvvgvsdldpvrWpnSkWrsLk 83 r++Gt++g+sdld+vrWpnS+Wrs+k Csa12g074460.1 385 RYMGTITGISDLDTVRWPNSHWRSVK 410 79*********************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	7.98E-28	112	183	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.8E-17	119	183	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	8.28E-8	125	183	No hit	No description
SMART	SM01019	0.027	126	214	IPR003340	B3 DNA binding domain
SuperFamily	SSF101936	1.19E-47	228	371	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	4.8E-40	235	357	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.38E-21	241	337	No hit	No description
SMART	SM01019	2.7E-23	242	344	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.308	242	344	IPR003340	B3 DNA binding domain
Pfam	PF02362	5.3E-21	242	343	IPR003340	B3 DNA binding domain
Pfam	PF06507	4.2E-6	385	410	IPR010525	Auxin response factor
SuperFamily	SSF54277	3.27E-7	783	863	No hit	No description
Pfam	PF02309	6.8E-8	785	874	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	22.8	789	873	IPR000270	PB1 domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009725	Biological Process	response to hormone
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 896 aa Download sequence Send to blast
MKLSSSGLGQ QGHEGEKCLN SELWHACAGP LVSLPSSGSR VVYFPQGHSE QVAATTNKEV 60 DGHIPNYPSL PPQLICQLHN VTMHADVETD EVYAQMTLQP LTPEEQKETF VPIELGIPSK 120 QPSNYFCKTL TASDTSTHGG FSVPRRAAEK VFPPLDYTLQ PPAQELIARD LHDVEWKFRH 180 IFRVFGMMCF VSMGFVSTFQ ADVETDEVYA QMTLQPLTPE EQKETFVPIE LGIPSKQPSN 240 YFCKTLTASD TSTHGGFSVP RRAAEKVFPP LDYTLQPPAQ ELIARDLHDV EWKFRHIFRG 300 QPKRHLLTTG WSVFVSAKRL VAGDSVIFIR NEKNQLFLGI RRATRPQTIV PSSVLSSDSM 360 HIGLLAAAAH ASATNSCFTV FFHPRYMGTI TGISDLDTVR WPNSHWRSVK VGWDESTAGE 420 RQPRVSLWEI EPLTTFPMYP SLFPLRLKRP WHAGTSSLPD GRGELGSGLT WLRGGGGEQQ 480 GLLPLNYPSV GLFPWMQQRL DLTQMGTDNN QQYQAMLAAG LQNIGGGDPL RQQFVQLQEP 540 HHQYLQQSAS HNSDLMLQQQ QQQASRHPMH GQPQIMSENI PQQSMRQEVS NHPTGQQLQQ 600 PDQNAYLNAF KMQNGHLQQW QHSDMPSPSF MKSDFTDSSN KFATSATPMQ QNNASPASGD 660 GSNLLNFSIT GQSVLPEQLT TEGWSPKASN TFSEPLSLPQ AYPGKSLALE PGNPNLNPQN 720 PSLFGVDPDS GLFLPSTVPR FGSSSGDAEA SPMSLTDSGF QNSLYGCMQD TTHELLHGAG 780 QINPSTQTKN FVKVYKSGSV GRSLDISRFS SYHELREELG KMFAIEGLLE DPLRSGWQLV 840 FVDKENDILL LGDDPWESFV NNVWYIKILS PEDVQQMGDQ GEGSGGSFPQ NPTHL*

Sequence ? help Back to Top

Protein Sequence Length: 896 aa Download sequence Send to blast

MKLSSSGLGQ QGHEGEKCLN SELWHACAGP LVSLPSSGSR VVYFPQGHSE QVAATTNKEV  60
DGHIPNYPSL PPQLICQLHN VTMHADVETD EVYAQMTLQP LTPEEQKETF VPIELGIPSK  120
QPSNYFCKTL TASDTSTHGG FSVPRRAAEK VFPPLDYTLQ PPAQELIARD LHDVEWKFRH  180
IFRVFGMMCF VSMGFVSTFQ ADVETDEVYA QMTLQPLTPE EQKETFVPIE LGIPSKQPSN  240
YFCKTLTASD TSTHGGFSVP RRAAEKVFPP LDYTLQPPAQ ELIARDLHDV EWKFRHIFRG  300
QPKRHLLTTG WSVFVSAKRL VAGDSVIFIR NEKNQLFLGI RRATRPQTIV PSSVLSSDSM  360
HIGLLAAAAH ASATNSCFTV FFHPRYMGTI TGISDLDTVR WPNSHWRSVK VGWDESTAGE  420
RQPRVSLWEI EPLTTFPMYP SLFPLRLKRP WHAGTSSLPD GRGELGSGLT WLRGGGGEQQ  480
GLLPLNYPSV GLFPWMQQRL DLTQMGTDNN QQYQAMLAAG LQNIGGGDPL RQQFVQLQEP  540
HHQYLQQSAS HNSDLMLQQQ QQQASRHPMH GQPQIMSENI PQQSMRQEVS NHPTGQQLQQ  600
PDQNAYLNAF KMQNGHLQQW QHSDMPSPSF MKSDFTDSSN KFATSATPMQ QNNASPASGD  660
GSNLLNFSIT GQSVLPEQLT TEGWSPKASN TFSEPLSLPQ AYPGKSLALE PGNPNLNPQN  720
PSLFGVDPDS GLFLPSTVPR FGSSSGDAEA SPMSLTDSGF QNSLYGCMQD TTHELLHGAG  780
QINPSTQTKN FVKVYKSGSV GRSLDISRFS SYHELREELG KMFAIEGLLE DPLRSGWQLV  840
FVDKENDILL LGDDPWESFV NNVWYIKILS PEDVQQMGDQ GEGSGGSFPQ NPTHL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	2e-89	8	431	40	388	Auxin response factor 5
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16107481, ECO:0000269\|PubMed:16829592}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa12g074460.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by miR167. {ECO:0000269\|PubMed:17021043}.

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	AF042196	0.0	AF042196.1 Arabidopsis thaliana auxin response factor 8 (ARF8) mRNA, complete cds.
GenBank	AY669790	0.0	AY669790.1 Arabidopsis thaliana clone C105345 ARF8 (At5g37020) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010450468.1	0.0	PREDICTED: auxin response factor 8 isoform X2
Swissprot	Q9FGV1	0.0	ARFH_ARATH; Auxin response factor 8
TrEMBL	R0GF16	0.0	R0GF16_9BRAS; Auxin response factor
STRING	XP_010450468.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1344	28	94

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G37020.1	0.0	auxin response factor 8

Publications ? help Back to Top
Liu N, et al. Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato. J. Exp. Bot., 2014. 65(9): p. 2507-20 [PMID:24723401] Minato N, et al. The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways. Sci Rep, 2014. 4: p. 7399 [PMID:25492247] Ortega-Amaro MA, et al. Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance. Front Plant Sci, 2014. 5: p. 782 [PMID:25653657] Wang Y, et al. MicroRNA167-Directed Regulation of the Auxin Response Factors GmARF8a and GmARF8b Is Required for Soybean Nodulation and Lateral Root Development. Plant Physiol., 2015. 168(3): p. 984-99 [PMID:25941314] Barik S, et al. Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species. Sci Rep, 2015. 5: p. 14611 [PMID:26459056] Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants. Plant Physiol. Biochem., 2016. 104: p. 146-54 [PMID:27031426] Mlotshwa S,Pruss GJ,MacArthur JL,Reed JW,Vance V Developmental Defects Mediated by the P1/HC-Pro Potyviral Silencing Suppressor Are Not Due to Misregulation of AUXIN RESPONSE FACTOR 8. Plant Physiol., 2016. 172(3): p. 1853-1861 [PMID:27688620] Wójcikowska B,Gaj MD Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis. Plant Cell Rep., 2017. 36(6): p. 843-858 [PMID:28255787] Zhang GZ, et al. Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis. Plant Cell Rep., 2017. 36(12): p. 1995-2006 [PMID:29027578] Zheng K, et al. Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis. Front Plant Sci, 2017. 8: p. 1813 [PMID:29114256] Liu Z, et al. ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis. Plant Cell Physiol., 2018. 59(1): p. 179-189 [PMID:29145642] Ghelli R, et al. A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis. Plant Cell, 2018. 30(3): p. 620-637 [PMID:29514943]