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

Gh_D06G0818

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

ARF

Protein Properties

Length: 1156aa MW: 128942 Da PI: 6.5801

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D06G0818	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70.8	1.7e-22	127	228	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f+k+lt sd++++g +++p++ ae++ +++++ ++l+ +d++ ++W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F + +++ +l Gh_D06G0818 127 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfSMQPPA-QELVAKDLHDNTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFIR--DEKSQL 221 99***************************9445444.38**********************************************4..566667 PP EEEEE-S CS B3 93 vvkvfrk 99 +++ +r+ Gh_D06G0818 222 LLGTRRA 228 9888876 PP
2	Auxin_resp	124.4	7.6e-41	253	335	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras+seFv++++k++ka++++vs+GmRf+m+fete+s rr++Gt++g+sdldpvrW+nS+Wr+L+ Gh_D06G0818 253 AAHAAANNSPFTIFYNPRASPSEFVIPLAKFNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDLDPVRWKNSQWRNLQ 335 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.57E-44	117	256	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.5E-41	119	242	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.45E-19	126	219	No hit	No description
Pfam	PF02362	1.1E-20	127	228	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.984	127	229	IPR003340	B3 DNA binding domain
SMART	SM01019	1.0E-22	127	229	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.0E-35	253	335	IPR010525	Auxin response factor
Pfam	PF02309	1.2E-9	1026	1115	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	25.847	1029	1122	IPR000270	PB1 domain
SuperFamily	SSF54277	1.03E-8	1045	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:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
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: 1156 aa Download sequence Send to blast
MKAPPNGFMA NSAEAGERKS INSELWHACA GPLVSLPPVG SLVVYFPQGH SEQVAASMQK 60 ETDFIPSYPN LPSKLICMLH NVTLHADPET DEVYAQMTLQ PVNKYDKEAL LASDIGLKQS 120 RQPAEFFCKT LTASDTSTHG GFSVPRRAAE KIFPPLDFSM QPPAQELVAK DLHDNTWTFR 180 HIYRGQPKRH LLTTGWSVFV STKRLFAGDS VLFIRDEKSQ LLLGTRRANR QQPALSSSVI 240 SSDSMHIGIL AAAAHAAANN SPFTIFYNPR ASPSEFVIPL AKFNKAMYTQ VSLGMRFRMM 300 FETEESGVRR YMGTITGISD LDPVRWKNSQ WRNLQVGWDE STAGERPSRV SIWDIEPVIT 360 PFYICPPPFF RPRFPKQPGM PDDESDIENA FKRAMPWLGD DFGMKDAPSS IFPGLSLVQW 420 MSMQQNNQFP AAQSGFFPSM VSSNPLHNSL GTDDPAKLLN FQAPALPASN MQFNKANTNQ 480 INQLTQAPMT WPQQQQLQQL FQAPLNQQQQ SLQQLQRQLP QPPQQQPQPQ PHLFHQQQPQ 540 PQPQPQPQPQ SQSQSESQSQ SQSQSKPQPQ PQPPPLQQQQ QQQQLQQQHQ KRQQTQSQQQ 600 LQQAFLPSQV NNGIIASNQI PNQNLHQPAV YSQLQQQQLM TSSSQSAQTT PSANKTSYPL 660 TSLPQDTQIQ QQMEQQPNLM QRQLQQTQLQ QSQLQLLQQS LSQRTQQQPQ LLQLSQQGFS 720 EQQLQLQLLQ KLQQQQQQQQ QSSQQLLSPA GSLLQPQMLQ QQPTHQQSQP LQQLPLSQSQ 780 SQPLGSNGFS TSMPVQPQQV SVHQPQIHKP FTAMRTHSGL TDGDAPSCST SPSTNNCQVS 840 SLNFLNKNQQ VPSLLVSDPL VEPASTLVQE LQSKPDIRIK HELPTSKGPE LSKYKSTVTD 900 QLEASSSGTS YCLDAGTIQH NFSLPTFLEG DLQSHSRNNL PFTANIDGLA PDTLLSRGYD 960 SQKDLQNMLS NYGGNPRDID AELSTPAISS QSFGVPNIPF KTGCSNDVAI SDTGVLNGGL 1020 WANQTQRMRT YTKVQKRGSV GRSIDVTRYK GYDELRHDLA RMFGIEGQLE DPQSSDWKLV 1080 YVDHENDILL VGDDPWEEFV SCVQSIKILS SGEVQQMSLE GDLGNVAVPN QACSGTDSGN 1140 AWRGQYDDTS AASFNR

Sequence ? help Back to Top

Protein Sequence Length: 1156 aa Download sequence Send to blast

MKAPPNGFMA NSAEAGERKS INSELWHACA GPLVSLPPVG SLVVYFPQGH SEQVAASMQK  60
ETDFIPSYPN LPSKLICMLH NVTLHADPET DEVYAQMTLQ PVNKYDKEAL LASDIGLKQS  120
RQPAEFFCKT LTASDTSTHG GFSVPRRAAE KIFPPLDFSM QPPAQELVAK DLHDNTWTFR  180
HIYRGQPKRH LLTTGWSVFV STKRLFAGDS VLFIRDEKSQ LLLGTRRANR QQPALSSSVI  240
SSDSMHIGIL AAAAHAAANN SPFTIFYNPR ASPSEFVIPL AKFNKAMYTQ VSLGMRFRMM  300
FETEESGVRR YMGTITGISD LDPVRWKNSQ WRNLQVGWDE STAGERPSRV SIWDIEPVIT  360
PFYICPPPFF RPRFPKQPGM PDDESDIENA FKRAMPWLGD DFGMKDAPSS IFPGLSLVQW  420
MSMQQNNQFP AAQSGFFPSM VSSNPLHNSL GTDDPAKLLN FQAPALPASN MQFNKANTNQ  480
INQLTQAPMT WPQQQQLQQL FQAPLNQQQQ SLQQLQRQLP QPPQQQPQPQ PHLFHQQQPQ  540
PQPQPQPQPQ SQSQSESQSQ SQSQSKPQPQ PQPPPLQQQQ QQQQLQQQHQ KRQQTQSQQQ  600
LQQAFLPSQV NNGIIASNQI PNQNLHQPAV YSQLQQQQLM TSSSQSAQTT PSANKTSYPL  660
TSLPQDTQIQ QQMEQQPNLM QRQLQQTQLQ QSQLQLLQQS LSQRTQQQPQ LLQLSQQGFS  720
EQQLQLQLLQ KLQQQQQQQQ QSSQQLLSPA GSLLQPQMLQ QQPTHQQSQP LQQLPLSQSQ  780
SQPLGSNGFS TSMPVQPQQV SVHQPQIHKP FTAMRTHSGL TDGDAPSCST SPSTNNCQVS  840
SLNFLNKNQQ VPSLLVSDPL VEPASTLVQE LQSKPDIRIK HELPTSKGPE LSKYKSTVTD  900
QLEASSSGTS YCLDAGTIQH NFSLPTFLEG DLQSHSRNNL PFTANIDGLA PDTLLSRGYD  960
SQKDLQNMLS NYGGNPRDID AELSTPAISS QSFGVPNIPF KTGCSNDVAI SDTGVLNGGL  1020
WANQTQRMRT YTKVQKRGSV GRSIDVTRYK GYDELRHDLA RMFGIEGQLE DPQSSDWKLV  1080
YVDHENDILL VGDDPWEEFV SCVQSIKILS SGEVQQMSLE GDLGNVAVPN QACSGTDSGN  1140
AWRGQYDDTS AASFNR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-173	14	356	43	388	Auxin response factor 5
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.21241	0.0	boll\| ovule

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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16461383, ECO:0000269\|PubMed:17259263}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin and ethylene. {ECO:0000269\|PubMed:16461383}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Swissprot	Q8RYC8	0.0	ARFS_ARATH; Auxin response factor 19

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2629	26	65

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
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Perilli S, et al. RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling. Plant Cell, 2013. 25(11): p. 4469-78 [PMID:24285791] Sun Y, et al. Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas. Sci Rep, 2017. 7: p. 40844 [PMID:28102350] 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] Olmo R, et al. Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program? Front Plant Sci, 2017. 8: p. 875 [PMID:28603536] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana. Plant Sci., 2017. 264: p. 168-178 [PMID:28969797] Nakamura M, et al. Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells. Plant Physiol., 2018. 176(1): p. 378-391 [PMID:29084900] Hong L, et al. Alternative polyadenylation is involved in auxin-based plant growth and development. Plant J., 2018. 93(2): p. 246-258 [PMID:29155478] Lee K,Park OS,Seo PJ Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation. Sci Signal, 2018. [PMID:29184030] Kimura T, et al. Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 823-835 [PMID:29401292] Schoenaers S, et al. The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth. Curr. Biol., 2018. 28(5): p. 722-732.e6 [PMID:29478854] Huang KL, et al. The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots. Plant Physiol., 2018. 178(1): p. 413-427 [PMID:30026290]