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

Sevir.4G252900.2.p

Organism

Setaria viridis

Taxonomic ID

4556

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

ARF

Protein Properties

Length: 1151aa MW: 127191 Da PI: 6.5111

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sevir.4G252900.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71.7	9e-23	143	244	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 f+k+lt sd++++g +++p++ ae++ + +++ ++++ +d++ +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F Sevir.4G252900.2.p 143 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDATWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV- 230 99***************************954.4444.48********************************************. PP -SSSEE..EEEEE-S CS B3 85 dgrsefelvvkvfrk 99 ++++++l+++++r+ Sevir.4G252900.2.p 231 -RDEKQQLLLGIRRA 244 .5688889**997 PP
2	Auxin_resp	107.2	1.8e-35	269	350	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnP+ ++eFvv+++k++kal+ +++s+GmRf+m+fete+ +rr++Gt++g+sdldpvrW+nS+Wr+L+ Sevir.4G252900.2.p 269 AAHAAANNSPFTIFYNPS--PTEFVVPFAKYQKALYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 350 79*************7..7***********9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51257	5	1	27	No hit	No description
SuperFamily	SSF101936	2.62E-43	132	272	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.3E-41	135	258	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.81E-19	142	234	No hit	No description
SMART	SM01019	7.4E-23	143	245	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.1E-20	143	244	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.97	143	245	IPR003340	B3 DNA binding domain
Pfam	PF06507	9.9E-31	269	350	IPR010525	Auxin response factor
Pfam	PF02309	4.9E-10	1015	1102	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	28.939	1017	1101	IPR000270	PB1 domain
SuperFamily	SSF54277	1.37E-7	1029	1096	No hit	No description

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: 1151 aa Download sequence Send to blast
MIKQQQQPAS SVGPQAAAVA AAAASGCEGE KKPPAINSEL WHACAGPLVS LPPAGSLVVY 60 FPQGHSEQVA ASMQKDVDGH VPSYPNLPSK LICLLHNVTL HADPETDEVY AQMTLQPVTS 120 YGKEALQLSE LALKQPRPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA 180 QEIQARDLHD ATWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV RDEKQQLLLG 240 IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPSPTEF VVPFAKYQKA 300 LYGNQISLGM RFRMMFETEE LGTRRYMGTI TGISDLDPVR WKNSQWRNLQ VGWDESAAGE 360 RRNRVSIWEI EPVAAPFFIC PPPFFGSKRP RQLDDESSEM ENLLKRAMPW LGEEICIKDP 420 QTQNTIMPGL SLVQWMNMNM QQNSSFANTA MQSEYLRSLS NPNMQNLGAA DLSRQLCLQN 480 QILQQNSIQF SSSKLPQQMQ PVNELSKATL PLNQLGMGTK LQEQTHDPSN LQRQQQSMNQ 540 LLPLSQSQTN LVQAQVLVQN QMQQQQQPPS MTQNQQPAAS QPQLLPHPQQ QQQQQQHQQQ 600 KLLHQQQQLL LQQQQLQQQQ QNQQQLNKMA AQVPNLAAQQ LQLSDQQLQL QLLQKLQQQQ 660 QSLLSQPAVT LAQLPLIQEQ QKLILDMQQQ LSNSQSLSQQ QTMPQQSTKV PSQATPPPPP 720 SMQQEPQQKV PQKHVGFTDT SHAAIPPTTS VNAISAAGSP MMANGAAHSV LTEEIPSCST 780 SPSTANGNHL VQPILGRNQQ CGMINNEKLP QSTAPMSIPS SLEAVTGIPR STKELPKLNS 840 NVKQSVMASK LPNTGPIPQN LVNSAPPTDY LETASSATSV WLSQADGLLH QGFPMSNFNQ 900 QQIFKDAPPE TDIQGTDPSN NALFGINNDG QLGFPMGADG FLSNGIDASK YQNHISTDID 960 GNYRIPKDGQ QEISSSMVSQ SFGASDMAFN SIDSGMNDGG FLNRTSWPPA APLKRMRTFT 1020 KVYKRGAVGR SIDISHYSGY DELKHALARM FSIEGQLEEQ QRIGWKLVYK DHEDDILLLG 1080 DDPWEEFVNC VRCIRILSPQ EVQQMSLDGD LGNNILPNQA CSSSDGGNAW RARCDQNSGN 1140 PSTGSYDQFE *

Sequence ? help Back to Top

Protein Sequence Length: 1151 aa Download sequence Send to blast

MIKQQQQPAS SVGPQAAAVA AAAASGCEGE KKPPAINSEL WHACAGPLVS LPPAGSLVVY  60
FPQGHSEQVA ASMQKDVDGH VPSYPNLPSK LICLLHNVTL HADPETDEVY AQMTLQPVTS  120
YGKEALQLSE LALKQPRPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA  180
QEIQARDLHD ATWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV RDEKQQLLLG  240
IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPSPTEF VVPFAKYQKA  300
LYGNQISLGM RFRMMFETEE LGTRRYMGTI TGISDLDPVR WKNSQWRNLQ VGWDESAAGE  360
RRNRVSIWEI EPVAAPFFIC PPPFFGSKRP RQLDDESSEM ENLLKRAMPW LGEEICIKDP  420
QTQNTIMPGL SLVQWMNMNM QQNSSFANTA MQSEYLRSLS NPNMQNLGAA DLSRQLCLQN  480
QILQQNSIQF SSSKLPQQMQ PVNELSKATL PLNQLGMGTK LQEQTHDPSN LQRQQQSMNQ  540
LLPLSQSQTN LVQAQVLVQN QMQQQQQPPS MTQNQQPAAS QPQLLPHPQQ QQQQQQHQQQ  600
KLLHQQQQLL LQQQQLQQQQ QNQQQLNKMA AQVPNLAAQQ LQLSDQQLQL QLLQKLQQQQ  660
QSLLSQPAVT LAQLPLIQEQ QKLILDMQQQ LSNSQSLSQQ QTMPQQSTKV PSQATPPPPP  720
SMQQEPQQKV PQKHVGFTDT SHAAIPPTTS VNAISAAGSP MMANGAAHSV LTEEIPSCST  780
SPSTANGNHL VQPILGRNQQ CGMINNEKLP QSTAPMSIPS SLEAVTGIPR STKELPKLNS  840
NVKQSVMASK LPNTGPIPQN LVNSAPPTDY LETASSATSV WLSQADGLLH QGFPMSNFNQ  900
QQIFKDAPPE TDIQGTDPSN NALFGINNDG QLGFPMGADG FLSNGIDASK YQNHISTDID  960
GNYRIPKDGQ QEISSSMVSQ SFGASDMAFN SIDSGMNDGG FLNRTSWPPA APLKRMRTFT  1020
KVYKRGAVGR SIDISHYSGY DELKHALARM FSIEGQLEEQ QRIGWKLVYK DHEDDILLLG  1080
DDPWEEFVNC VRCIRILSPQ EVQQMSLDGD LGNNILPNQA CSSSDGGNAW RARCDQNSGN  1140
PSTGSYDQFE *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-164	29	371	45	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).

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sevir.4G252900.2.p

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	AK103312	0.0	AK103312.1 Oryza sativa Japonica Group cDNA clone:J033125G19, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004966097.1	0.0	auxin response factor 19 isoform X1
Swissprot	Q0D9R7	0.0	ARFS_ORYSJ; Auxin response factor 19
TrEMBL	A0A368QXM8	0.0	A0A368QXM8_SETIT; Auxin response factor
STRING	Pavir.J00164.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19220.1	0.0	auxin response factor 19

Link Out ? help Back to Top
Phytozome	Sevir.4G252900.2.p

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Zhang S, et al. The auxin response factor, OsARF19, controls rice leaf angles through positively regulating OsGH3-5 and OsBRI1. Plant Cell Environ., 2015. 38(4): p. 638-54 [PMID:24995795]