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_A02G1438

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

GRF

Protein Properties

Length: 522aa MW: 57252.8 Da PI: 7.9732

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A02G1438	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	76.9	2.1e-24	202	246	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e Gh_A02G1438 202 DPEPGRCRRTDGKKWRCSRDAVADQKYCERHINRGRHRSRKPVEG 246 79****************************************985 PP
2	QLQ	49.6	1.2e-17	134	168	3	37
QLQ 3 FTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 +T++Q+ +L +Q+l+yKy+++n+PvP++Ll +++k Gh_A02G1438 134 LTPSQWIELQHQALIYKYIMSNVPVPSNLLTPLKK 168 8******************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	7.5E-8	132	168	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	19.511	133	168	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	5.7E-12	134	166	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.287	202	246	IPR014977	WRC domain
Pfam	PF08879	6.4E-21	203	245	IPR014977	WRC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005524	Molecular Function	ATP binding

Sequence ? help Back to Top
Protein Sequence Length: 522 aa Download sequence Send to blast
MDFGVLGLDG IVGPNNGAPS PSPPVESKPK LFGSGFTKQE RSSDSAEEED HWKSCKVPKT 60 MPLHQGIPLL RSNETPQQQQ DHMISFSSLK SALPFIRKDG NFMEKTTQSN DFSMYTRNAG 120 YGSGNLNATM HGVLTPSQWI ELQHQALIYK YIMSNVPVPS NLLTPLKKSL YPYGFTSSSV 180 GSLPYNSLGL GSFHLRYTGS TDPEPGRCRR TDGKKWRCSR DAVADQKYCE RHINRGRHRS 240 RKPVEGQTGH TATNSKVVSM SSSLLASAKT SGGAANSLAI ALQHRSGAAD PSSDTLVNRI 300 QDQRGFSLLS STTNLKSDDS TTFTITKQGV PFVESTLSDF GHVASDSLVN PSHKSSYMNS 360 KEYGHGLFLD FTGQETQDQT PPHQFIDNWP KDQSSRSIVT WPNELKPDWT QLSMSIPMVT 420 SEFSSTLSSP VKEKLDLSSL RLVQEFDQIQ MGLGVNNDIT EQTKKQPNWI PISWGGSMGG 480 PLGEILNNTT NNAGSCQNSS TLTFLSEGLD GNRIQLQNTP FS

Sequence ? help Back to Top

Protein Sequence Length: 522 aa Download sequence Send to blast

MDFGVLGLDG IVGPNNGAPS PSPPVESKPK LFGSGFTKQE RSSDSAEEED HWKSCKVPKT  60
MPLHQGIPLL RSNETPQQQQ DHMISFSSLK SALPFIRKDG NFMEKTTQSN DFSMYTRNAG  120
YGSGNLNATM HGVLTPSQWI ELQHQALIYK YIMSNVPVPS NLLTPLKKSL YPYGFTSSSV  180
GSLPYNSLGL GSFHLRYTGS TDPEPGRCRR TDGKKWRCSR DAVADQKYCE RHINRGRHRS  240
RKPVEGQTGH TATNSKVVSM SSSLLASAKT SGGAANSLAI ALQHRSGAAD PSSDTLVNRI  300
QDQRGFSLLS STTNLKSDDS TTFTITKQGV PFVESTLSDF GHVASDSLVN PSHKSSYMNS  360
KEYGHGLFLD FTGQETQDQT PPHQFIDNWP KDQSSRSIVT WPNELKPDWT QLSMSIPMVT  420
SEFSSTLSSP VKEKLDLSSL RLVQEFDQIQ MGLGVNNDIT EQTKKQPNWI PISWGGSMGG  480
PLGEILNNTT NNAGSCQNSS TLTFLSEGLD GNRIQLQNTP FS

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.2980	0.0	ovule\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of leaf development and expression decreases with the maturation of the leaf. {ECO:0000269\|PubMed:20023165}.
Uniprot	TISSUE SPECIFICITY: Strongly expressed in actively growing and developing tissues, such as roots, upper stems, and shoot tips containing the shoot apical meristem (SAM) and flower buds. Also expressed in mature flowers, but weakly expressed in mature stems and leaves. {ECO:0000269\|PubMed:12974814}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that plays a role in the regulation of cell expansion in leaf and cotyledons tissues. Component of a network formed by miR396, the GRFs and their interacting factors (GIFs) acting in the regulation of meristem function, at least partially through the control of cell proliferation. microRNA396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection, leading to the formation of the syncytium. {ECO:0000269\|PubMed:12974814, ECO:0000269\|PubMed:15326298, ECO:0000269\|PubMed:22419826, ECO:0000269\|PubMed:22751317}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: microRNA 396 (miR396a or miR396b) negatively regulates growth-regulating factors (GRF1-4 and GRF7-9). Up-regulated in response to cyst nematode infection. {ECO:0000269\|PubMed:15200956, ECO:0000269\|PubMed:19453503, ECO:0000269\|PubMed:20023165, ECO:0000269\|PubMed:22419826}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681875	1e-43	LN681875.1 Cucumis melo genomic scaffold, anchoredscaffold00007.
GenBank	LN713262	1e-43	LN713262.1 Cucumis melo genomic chromosome, chr_8.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016729884.1	0.0	PREDICTED: growth-regulating factor 1-like
Swissprot	O81001	1e-116	GRF1_ARATH; Growth-regulating factor 1
TrEMBL	A0A1U8MWC9	0.0	A0A1U8MWC9_GOSHI; growth-regulating factor 1-like
STRING	Gorai.003G032300.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1454	28	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G22840.1	1e-117	growth-regulating factor 1

Publications ? help Back to Top
Casadevall R,Rodriguez RE,Debernardi JM,Palatnik JF,Casati P Repression of growth regulating factors by the microRNA396 inhibits cell proliferation by UV-B radiation in Arabidopsis leaves. Plant Cell, 2013. 25(9): p. 3570-83 [PMID:24076976] Liu J,Rice JH,Chen N,Baum TJ,Hewezi T Synchronization of developmental processes and defense signaling by growth regulating transcription factors. PLoS ONE, 2014. 9(5): p. e98477 [PMID:24875638] Cao Y,Han Y,Jin Q,Lin Y,Cai Y Comparative Genomic Analysis of the GRF Genes in Chinese Pear (Pyrus bretschneideri Rehd), Poplar (Populous), Grape (Vitis vinifera), Arabidopsis and Rice (Oryza sativa). Front Plant Sci, 2016. 7: p. 1750 [PMID:27933074]