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

ORGLA06G0221800.1

Organism

Oryza glaberrima

Taxonomic ID

4538

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: 1162aa MW: 128522 Da PI: 6.5114

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA06G0221800.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71.6	1e-22	153	254	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 f+k+lt sd++++g +++p++ ae++ + +++ ++l+ +d++ ++W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F ORGLA06G0221800.1 153 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QELQARDLHDNVWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV-- 240 99***************************954.4444.49********************************************.. PP SSSEE..EEEEE-S CS B3 86 grsefelvvkvfrk 99 ++++++l+++++r+ ORGLA06G0221800.1 241 RDEKQQLLLGIRRA 254 5688889**997 PP
2	Auxin_resp	117.9	8.1e-39	279	362	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+ ORGLA06G0221800.1 279 AAHAAANNSPFTIFYNPRASPTEFVIPFAKYQKAVYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 362 79********************************9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.4E-43	142	282	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.3E-41	145	268	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.69E-19	152	244	No hit	No description
Pfam	PF02362	1.2E-20	153	254	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.801	153	255	IPR003340	B3 DNA binding domain
SMART	SM01019	1.6E-22	153	255	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.5E-33	279	362	IPR010525	Auxin response factor
Pfam	PF02309	1.8E-9	1026	1113	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	26.938	1028	1112	IPR000270	PB1 domain
SuperFamily	SSF54277	4.51E-7	1040	1107	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: 1162 aa Download sequence Send to blast
MMKQAQQVPP PPASSAVTTT TAMAAATAAA VVGSGCEGEK TKAPAINSEL WHACAGPLVS 60 LPPAGSLVVY FPQGHSEQVA ASMQKDVDAH VPSYPNLPSK LICLLHNVTL HADPETDEVY 120 AQMTLQPVTS YGKEALQLSE LALKQARPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP 180 PLDFSMQPPA QELQARDLHD NVWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV 240 RDEKQQLLLG IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPRASPT 300 EFVIPFAKYQ KAVYGNQISL GMRFRMMFET EELGTRRYMG TITGISDLDP VRWKNSQWRN 360 LQVGWDESAA GERRNRVSIW EIEPVAAPFF ICPPPFFGAK RPRQLDDESS EMENLLKRAM 420 PWLGEEICIK DPQTQNTIMP GLSLVQWMNM NMQQSSSFAN TAMQSEYLRS LSNPNMQNLG 480 AADLSRQLCL QNQLLQQNNI QFNTPKLSQQ MQPVNELAKA GIPLNQLAVS TKPQEQIHDA 540 SNLQRQQPSM NHMLPLSQAQ TSLGQAQVLV QNQMQQQHAS STQGQQPATS QPLLMPQQQQ 600 QQQHQEQQQQ QQQQQQQQQK LLQQQQQQLL LQQQQQLSKM PAQLSNLANQ QFQLTDQQLQ 660 LQLLQKLQQQ QQSLLSQPAV TLAQLPLIQE QQKLLLDMQQ QLSNSQTLSQ QQMMPQQSTK 720 VPSQNTPLPP VQQEPQQKLL QKQAMLADTS EAAVPPTTSV NVISTTGSPL MTTGATHSVL 780 TEEIPSCSTS PSTANGNHLL QPILGRNKHC SMINTEKVPQ SAAPMSVPSS LEAVTAIPRM 840 IKDSPKLNHN VKQSVVASKL ANAGTGSQNY VNNPPPTDYL ETASSATSVW LSQNDGLLHQ 900 NFPMSNFNQP QMFKDAPPDA EIHAANTSNN ALFGINGDGP LGFPIGLGTD DFLSNGIDAA 960 KYENHISTEI DNSYRIPKDA QQEISSSMVS QSFGASDMAF NSIDSTINDG GFLNRSSWPP 1020 AAPLKRMRTF TKVYKRGAVG RSIDMSQFSG YDELKHALAR MFSIEGQLEE RQRIGWKLVY 1080 KDHEDDILLL GDDPWEEFVG CVKCIRILSP QEVQQMSLEG CDLGNNIPPN QACSSSDGGN 1140 AWRARCDQNS GNPSNGSYEQ FE

Sequence ? help Back to Top

Protein Sequence Length: 1162 aa Download sequence Send to blast

MMKQAQQVPP PPASSAVTTT TAMAAATAAA VVGSGCEGEK TKAPAINSEL WHACAGPLVS  60
LPPAGSLVVY FPQGHSEQVA ASMQKDVDAH VPSYPNLPSK LICLLHNVTL HADPETDEVY  120
AQMTLQPVTS YGKEALQLSE LALKQARPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP  180
PLDFSMQPPA QELQARDLHD NVWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV  240
RDEKQQLLLG IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPRASPT  300
EFVIPFAKYQ KAVYGNQISL GMRFRMMFET EELGTRRYMG TITGISDLDP VRWKNSQWRN  360
LQVGWDESAA GERRNRVSIW EIEPVAAPFF ICPPPFFGAK RPRQLDDESS EMENLLKRAM  420
PWLGEEICIK DPQTQNTIMP GLSLVQWMNM NMQQSSSFAN TAMQSEYLRS LSNPNMQNLG  480
AADLSRQLCL QNQLLQQNNI QFNTPKLSQQ MQPVNELAKA GIPLNQLAVS TKPQEQIHDA  540
SNLQRQQPSM NHMLPLSQAQ TSLGQAQVLV QNQMQQQHAS STQGQQPATS QPLLMPQQQQ  600
QQQHQEQQQQ QQQQQQQQQK LLQQQQQQLL LQQQQQLSKM PAQLSNLANQ QFQLTDQQLQ  660
LQLLQKLQQQ QQSLLSQPAV TLAQLPLIQE QQKLLLDMQQ QLSNSQTLSQ QQMMPQQSTK  720
VPSQNTPLPP VQQEPQQKLL QKQAMLADTS EAAVPPTTSV NVISTTGSPL MTTGATHSVL  780
TEEIPSCSTS PSTANGNHLL QPILGRNKHC SMINTEKVPQ SAAPMSVPSS LEAVTAIPRM  840
IKDSPKLNHN VKQSVVASKL ANAGTGSQNY VNNPPPTDYL ETASSATSVW LSQNDGLLHQ  900
NFPMSNFNQP QMFKDAPPDA EIHAANTSNN ALFGINGDGP LGFPIGLGTD DFLSNGIDAA  960
KYENHISTEI DNSYRIPKDA QQEISSSMVS QSFGASDMAF NSIDSTINDG GFLNRSSWPP  1020
AAPLKRMRTF TKVYKRGAVG RSIDMSQFSG YDELKHALAR MFSIEGQLEE RQRIGWKLVY  1080
KDHEDDILLL GDDPWEEFVG CVKCIRILSP QEVQQMSLEG CDLGNNIPPN QACSSSDGGN  1140
AWRARCDQNS GNPSNGSYEQ FE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-171	41	383	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).

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA06G0221800.1

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	I1Q505	0.0	I1Q505_ORYGL; Auxin response factor
STRING	ORGLA06G0221800.1	0.0	(Oryza glaberrima)

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]