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

OGLUM06G27960.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

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: 1127aa MW: 124545 Da PI: 6.434

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM06G27960.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71.7	9.6e-23	121	222	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++ ++W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F ++ OGLUM06G27960.1 121 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QELQARDLHDNVWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV--RD 210 99***************************954.4444.49********************************************..56 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 ++++l+++++r+ OGLUM06G27960.1 211 EKQQLLLGIRRA 222 88889**997 PP
2	Auxin_resp	118	7.8e-39	247	330	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras++eFv++++k++ka++ +++s+GmRf+m+fete+ +rr++Gt++g+sdldpvrW+nS+Wr+L+ OGLUM06G27960.1 247 AAHAAANNSPFTIFYNPRASPTEFVIPFAKYQKAVYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 330 79********************************9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.14E-43	110	250	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.2E-41	113	236	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.48E-19	120	212	No hit	No description
SMART	SM01019	1.6E-22	121	223	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.2E-20	121	222	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.801	121	223	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.5E-33	247	330	IPR010525	Auxin response factor
Pfam	PF02309	1.7E-9	991	1078	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	26.938	993	1077	IPR000270	PB1 domain
SuperFamily	SSF54277	4.41E-7	1005	1072	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:0009734	Biological Process	auxin-activated signaling pathway
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: 1127 aa Download sequence Send to blast
MMKQAQQQPP PPPASSAATT TTAMAAAAAA AVVGSGCEGE KTKAPAINSE LWHACAGPLV 60 SLPPAGSLVV YFPQGHSEQA DPETDEVYAQ MTLQPVTSYG KEALQLSELA LKQARPQTEF 120 FCKTLTASDT STHGGFSVPR RAAEKIFPPL DFSMQPPAQE LQARDLHDNV WTFRHIYRGQ 180 PKRHLLTTGW SLFVSGKRLF AGDSVIFVRD EKQQLLLGIR RANRQPTNIS SSVLSSDSMH 240 IGILAAAAHA AANNSPFTIF YNPRASPTEF VIPFAKYQKA VYGNQISLGM RFRMMFETEE 300 LGTRRYMGTI TGISDLDPVR WKNSQWRNLQ VGWDESAAGE RRNRVSIWEI EPVAAPFFIC 360 PPPFFGAKRP RQLDDESSEM ENLLKRAMPW LGEEICIKDP QTQNTIMPGL SLVQWMNMNM 420 QQSSSFANTA MQSEYLRSLS NPNMQNLGAA DLSRQLCLQN QLLQQNNIQF NTPKLSQQMQ 480 PVNELAKAGI PLNQLGVSTK PQEQIHDASN LQRQQPSMNH MLPLSQTQTS LGQAQVLVQN 540 QMQQQHASST QGQQPATSQP LLLPQQQQQQ QQQQQQQQQQ QQQKLLQQQQ QQLLLQQQQQ 600 LSKMPAQLSS LANQQFQLTD QQLQLQLLQK LQQQQQSLLS QPAVTLAQLP LIQEQQKLLL 660 DMQQQLSNSQ TLSQQQMMPQ QSTKVPSQNT PLPLPVQQEP QQKLLQKQAM LADTSEAAVP 720 PTTSVNVIST TGSPLMTTGA THSVLTEEIP SCSTSPSTAN GNHLLQPILG RNKHCSMINT 780 EKVPQSAAPM SVPSSLEAVT ATPRMIKDSP KLNHNVKQSV VASKLANAGT GSQNYVNNPP 840 PTDYLETASS ATSVWLSQND GLLHQNFPMS NFNQPQMFKD APPDAEIHAA NTSNNALFGI 900 NGDGPLGFPI GLGTDDFLSN GIDAAKYENH ISTEIDNSYR IPKDAQQEIS SSMVSQSFGA 960 SDMAFNSIDS TINDGGFLNR SSWPPAAPLK RMRTFTKVYK RGAVGRSIDM SQFSGYDELK 1020 HALARMFSIE GQLEERQRIG WKLVYKDHED DILLLGDDPW EEFVGCVKCI RILSPQEVQQ 1080 MSLEGCDLGN NIPPNQACSS SDGGNAWRAR CDQNSGNPSN GSYEQFE

Sequence ? help Back to Top

Protein Sequence Length: 1127 aa Download sequence Send to blast

MMKQAQQQPP PPPASSAATT TTAMAAAAAA AVVGSGCEGE KTKAPAINSE LWHACAGPLV  60
SLPPAGSLVV YFPQGHSEQA DPETDEVYAQ MTLQPVTSYG KEALQLSELA LKQARPQTEF  120
FCKTLTASDT STHGGFSVPR RAAEKIFPPL DFSMQPPAQE LQARDLHDNV WTFRHIYRGQ  180
PKRHLLTTGW SLFVSGKRLF AGDSVIFVRD EKQQLLLGIR RANRQPTNIS SSVLSSDSMH  240
IGILAAAAHA AANNSPFTIF YNPRASPTEF VIPFAKYQKA VYGNQISLGM RFRMMFETEE  300
LGTRRYMGTI TGISDLDPVR WKNSQWRNLQ VGWDESAAGE RRNRVSIWEI EPVAAPFFIC  360
PPPFFGAKRP RQLDDESSEM ENLLKRAMPW LGEEICIKDP QTQNTIMPGL SLVQWMNMNM  420
QQSSSFANTA MQSEYLRSLS NPNMQNLGAA DLSRQLCLQN QLLQQNNIQF NTPKLSQQMQ  480
PVNELAKAGI PLNQLGVSTK PQEQIHDASN LQRQQPSMNH MLPLSQTQTS LGQAQVLVQN  540
QMQQQHASST QGQQPATSQP LLLPQQQQQQ QQQQQQQQQQ QQQKLLQQQQ QQLLLQQQQQ  600
LSKMPAQLSS LANQQFQLTD QQLQLQLLQK LQQQQQSLLS QPAVTLAQLP LIQEQQKLLL  660
DMQQQLSNSQ TLSQQQMMPQ QSTKVPSQNT PLPLPVQQEP QQKLLQKQAM LADTSEAAVP  720
PTTSVNVIST TGSPLMTTGA THSVLTEEIP SCSTSPSTAN GNHLLQPILG RNKHCSMINT  780
EKVPQSAAPM SVPSSLEAVT ATPRMIKDSP KLNHNVKQSV VASKLANAGT GSQNYVNNPP  840
PTDYLETASS ATSVWLSQND GLLHQNFPMS NFNQPQMFKD APPDAEIHAA NTSNNALFGI  900
NGDGPLGFPI GLGTDDFLSN GIDAAKYENH ISTEIDNSYR IPKDAQQEIS SSMVSQSFGA  960
SDMAFNSIDS TINDGGFLNR SSWPPAAPLK RMRTFTKVYK RGAVGRSIDM SQFSGYDELK  1020
HALARMFSIE GQLEERQRIG WKLVYKDHED DILLLGDDPW EEFVGCVKCI RILSPQEVQQ  1080
MSLEGCDLGN NIPPNQACSS SDGGNAWRAR CDQNSGNPSN GSYEQFE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-149	42	351	46	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 -- 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	AB071296	0.0	AB071296.1 Oryza sativa OsARF7a mRNA for auxin response factor 7a, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015643493.1	0.0	auxin response factor 19
Swissprot	Q0D9R7	0.0	ARFS_ORYSJ; Auxin response factor 19
TrEMBL	A0A0E0AE05	0.0	A0A0E0AE05_9ORYZ; Auxin response factor
STRING	OGLUM06G27960.1	0.0	(Oryza glumipatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1409	35	106

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
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]