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

OMERI03G32190.1

Organism

Oryza meridionalis

Taxonomic ID

40149

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

ARF

Protein Properties

Length: 1055aa MW: 116823 Da PI: 6.5963

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI03G32190.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.4	5.4e-23	127	228	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+k+lt sd++++g +++p++ ae++ ++++++ +l+ +d++ sW++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F ++ OMERI03G32190.1 127 FCKTLTASDTSTHGGFSVPRRAAEKIfppldftMQPPAQ--ELIAKDLHDISWKFRHIYRGQPKRHLLTTGWSVFVSTKRLLAGDSVLFI--RD 216 99***************************96555444..8**********************************************..45 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 ++ +l+++++r+ OMERI03G32190.1 217 EKSQLLLGIRRA 228 677789999997 PP
2	Auxin_resp	122.9	2.3e-40	253	335	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras+seFv++++k++kal+++vs+GmRf+m feteds rr++Gt++g+ dldpvrW+nS+Wr+L+ OMERI03G32190.1 253 AAHAAANSSPFTIFYNPRASPSEFVIPLAKYNKALYTQVSLGMRFRMLFETEDSGVRRYMGTITGIGDLDPVRWKNSHWRNLQ 335 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	2.49E-44	117	256	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.8E-40	119	242	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.46E-20	126	227	No hit	No description
SMART	SM01019	5.1E-23	127	229	IPR003340	B3 DNA binding domain
Pfam	PF02362	5.0E-21	127	228	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.224	127	229	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.8E-35	253	335	IPR010525	Auxin response factor
Pfam	PF02309	8.5E-9	937	1026	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	24.473	940	1024	IPR000270	PB1 domain
SuperFamily	SSF54277	3.83E-7	958	1019	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:0009723	Biological Process	response to ethylene
GO:0009734	Biological Process	auxin-activated signaling pathway
GO:0010311	Biological Process	lateral root formation
GO:0048366	Biological Process	leaf development
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1055 aa Download sequence Send to blast
MKDQGSSGVS PAPGEGEKKA INSELWHACA GPLVSLPPVG SLVVYFPQGH SEQVAASMHK 60 ELDNIPGYPS LPSKLICKLL SLTLHADSET DEVYAQMTLQ PVNKYDRDAM LASELGLKQN 120 KQPAEFFCKT LTASDTSTHG GFSVPRRAAE KIFPPLDFTM QPPAQELIAK DLHDISWKFR 180 HIYRGQPKRH LLTTGWSVFV STKRLLAGDS VLFIRDEKSQ LLLGIRRATR PQPALSSSVL 240 SSDSMHIGIL AAAAHAAANS SPFTIFYNPR ASPSEFVIPL AKYNKALYTQ VSLGMRFRML 300 FETEDSGVRR YMGTITGIGD LDPVRWKNSH WRNLQVGWDE STASERRTRV SIWEIEPVAT 360 PFYICPPPFF RPKLPKQPGM PDDENEVESA FKRAMPWLAD DFALKDVQSA LFPGLSLVQW 420 MAMQQNPQML TAAPQTVQSP YLNSNALAMQ DVMGSSNEDP TKRLNTQAQN MVLPNLQVGS 480 KVDHPVMSQH QQQPHQLSQQ QQVQPSQQSS VVLQQHQAQL LQQNAIHLQQ QQEHLQRQQS 540 QPAQQLKAAS SLHSVEQHKL KEQTSGGQVA SQAQMLNQIF PPSSSQLQQL GLPKSPTHRQ 600 GLTGLPIAGS LQQPTLTQTS QVQQAAEYQQ ALLQSQQQQQ QLQLQQLSQP EVQLQLLQKI 660 QQQNMLSQLN PQHQSQLIQQ LSQKSQEILQ QQILQHQFGG SDSIGQLKQS PSQQAPLNHM 720 TGSLTPQQLV RSHSALAESG DPSSSTAPSA SRISPINSLS RANQGSRNLT DMVATPQIDN 780 LLQEIQSKPD NRIKNDIQSK ETVPIHNRHP VSDQLDASSA TSFCLDESPR EGFSFPPVCL 840 DNNVQVDPRD NFLIAENVDA LMPDALLSRG MASGKGMCTL TSGQRDHRDV ENELSSAAFS 900 SQSFGVPDMS FKPGCSSDVA VTDAGIPSQG LWNNQTQRMR TFTKVQKRGS VGRSIDITRY 960 RDYDELRHDL ACMFGIQGQL EDPYRMDWKL VYVDHENDIL LVGDDPWEEF VGCVKSIKIL 1020 SAAEVQQMSL DGDLGGVPPQ TQACSASDDA NAWRG

Sequence ? help Back to Top

Protein Sequence Length: 1055 aa Download sequence Send to blast

MKDQGSSGVS PAPGEGEKKA INSELWHACA GPLVSLPPVG SLVVYFPQGH SEQVAASMHK  60
ELDNIPGYPS LPSKLICKLL SLTLHADSET DEVYAQMTLQ PVNKYDRDAM LASELGLKQN  120
KQPAEFFCKT LTASDTSTHG GFSVPRRAAE KIFPPLDFTM QPPAQELIAK DLHDISWKFR  180
HIYRGQPKRH LLTTGWSVFV STKRLLAGDS VLFIRDEKSQ LLLGIRRATR PQPALSSSVL  240
SSDSMHIGIL AAAAHAAANS SPFTIFYNPR ASPSEFVIPL AKYNKALYTQ VSLGMRFRML  300
FETEDSGVRR YMGTITGIGD LDPVRWKNSH WRNLQVGWDE STASERRTRV SIWEIEPVAT  360
PFYICPPPFF RPKLPKQPGM PDDENEVESA FKRAMPWLAD DFALKDVQSA LFPGLSLVQW  420
MAMQQNPQML TAAPQTVQSP YLNSNALAMQ DVMGSSNEDP TKRLNTQAQN MVLPNLQVGS  480
KVDHPVMSQH QQQPHQLSQQ QQVQPSQQSS VVLQQHQAQL LQQNAIHLQQ QQEHLQRQQS  540
QPAQQLKAAS SLHSVEQHKL KEQTSGGQVA SQAQMLNQIF PPSSSQLQQL GLPKSPTHRQ  600
GLTGLPIAGS LQQPTLTQTS QVQQAAEYQQ ALLQSQQQQQ QLQLQQLSQP EVQLQLLQKI  660
QQQNMLSQLN PQHQSQLIQQ LSQKSQEILQ QQILQHQFGG SDSIGQLKQS PSQQAPLNHM  720
TGSLTPQQLV RSHSALAESG DPSSSTAPSA SRISPINSLS RANQGSRNLT DMVATPQIDN  780
LLQEIQSKPD NRIKNDIQSK ETVPIHNRHP VSDQLDASSA TSFCLDESPR EGFSFPPVCL  840
DNNVQVDPRD NFLIAENVDA LMPDALLSRG MASGKGMCTL TSGQRDHRDV ENELSSAAFS  900
SQSFGVPDMS FKPGCSSDVA VTDAGIPSQG LWNNQTQRMR TFTKVQKRGS VGRSIDITRY  960
RDYDELRHDL ACMFGIQGQL EDPYRMDWKL VYVDHENDIL LVGDDPWEEF VGCVKSIKIL  1020
SAAEVQQMSL DGDLGGVPPQ TQACSASDDA NAWRG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-164	17	356	47	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).

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin under dark condition. {ECO:0000269\|PubMed:17408882}.

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	AK103327	0.0	AK103327.1 Oryza sativa Japonica Group cDNA clone:J033125L14, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015643020.1	0.0	auxin response factor 16 isoform X1
Swissprot	A3B9A0	0.0	ARFP_ORYSJ; Auxin response factor 16
TrEMBL	A0A0E0D772	0.0	A0A0E0D772_9ORYZ; Auxin response factor
STRING	ONIVA06G07160.1	0.0	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP9045	33	38

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

Publications ? help Back to Top
Shen C, et al. OsARF16, a transcription factor, is required for auxin and phosphate starvation response in rice (Oryza sativa L.). Plant Cell Environ., 2013. 36(3): p. 607-20 [PMID:22913536] Shen C, et al. OsARF16 is involved in cytokinin-mediated inhibition of phosphate transport and phosphate signaling in rice (Oryza sativa L.). PLoS ONE, 2014. 9(11): p. e112906 [PMID:25386911] Shen C, et al. OsARF16, a transcription factor regulating auxin redistribution, is required for iron deficiency response in rice (Oryza sativa L.). Plant Sci., 2015. 231: p. 148-58 [PMID:25576000]