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

Gorai.003G032300.1

Common Name

B456_003G032300, LOC105787697

Organism

Gossypium raimondii

Taxonomic ID

29730

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: 558aa MW: 60902.7 Da PI: 7.9704

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.003G032300.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	76.7	2.3e-24	206	250	1	45
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e Gorai.003G032300.1 206 DPEPGRCRRTDGKKWRCSRDAVADQKYCERHINRGRHRSRKPVEG 250 79****************************************985 PP
2	QLQ	49.5	1.3e-17	138	172	3	37
QLQ 3 FTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 +T++Q+ +L +Q+l+yKy+++n+PvP++Ll +++k Gorai.003G032300.1 138 LTPSQWIELQHQALIYKYIMSNVPVPSNLLTPLKK 172 8******************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	7.5E-8	136	172	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	19.511	137	172	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	6.2E-12	138	170	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	25.287	206	250	IPR014977	WRC domain
Pfam	PF08879	7.0E-21	207	249	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:0009624	Biological Process	response to nematode
GO:0048364	Biological Process	root development
GO:0048366	Biological Process	leaf development
GO:0061062	Biological Process	regulation of nematode larval development
GO:0005634	Cellular Component	nucleus
GO:0005524	Molecular Function	ATP binding

Sequence ? help Back to Top
Protein Sequence Length: 558 aa Download sequence Send to blast
MDFGVLGLDG IVGPNNGAPS PSPSPSPPVE SKPKLFGSGF TKQERSSDSA EEEDHWKSCK 60 VPKTMPLHQG IPLLRSNETP QQQQDHMISF SSLKSELPFI RKDGNFMEKT TQSNDFSMYT 120 RNAGYGSGNL NATMHGVLTP SQWIELQHQA LIYKYIMSNV PVPSNLLTPL KKSLYPYGFT 180 SSSVGSLPYN SLGWGSFHLR YTGSTDPEPG RCRRTDGKKW RCSRDAVADQ KYCERHINRG 240 RHRSRKPVEG QTGHTATNSK VESMSSSMLA SAKTSGGAAN SLAIALQHRS GAADPSSDTL 300 VNRIQDQRGF SVLSSTTNLK SDDSTTFTIT KQGVPFVESS LSDFGHVASD SLVNPSHKSY 360 YMNSKEYGHG LFLDFTGQET QDQTPPHQFI DNWPKDQSSR SIVTWPNELK PDWTQLSMSI 420 PMVTSEFSST LSSPVKEKLD LSSLRLVQEF DQIQMGLGVN NDITEQTKKQ PNWIPISWGG 480 STGGPLGEIL NNTTNNTGSC QNSSTLTFLS EGLDGNRIQL QNTPFSSLSN SSSGSSPIAE 540 NNKKLLGAAS VPSIIRS*

Sequence ? help Back to Top

Protein Sequence Length: 558 aa Download sequence Send to blast

MDFGVLGLDG IVGPNNGAPS PSPSPSPPVE SKPKLFGSGF TKQERSSDSA EEEDHWKSCK  60
VPKTMPLHQG IPLLRSNETP QQQQDHMISF SSLKSELPFI RKDGNFMEKT TQSNDFSMYT  120
RNAGYGSGNL NATMHGVLTP SQWIELQHQA LIYKYIMSNV PVPSNLLTPL KKSLYPYGFT  180
SSSVGSLPYN SLGWGSFHLR YTGSTDPEPG RCRRTDGKKW RCSRDAVADQ KYCERHINRG  240
RHRSRKPVEG QTGHTATNSK VESMSSSMLA SAKTSGGAAN SLAIALQHRS GAADPSSDTL  300
VNRIQDQRGF SVLSSTTNLK SDDSTTFTIT KQGVPFVESS LSDFGHVASD SLVNPSHKSY  360
YMNSKEYGHG LFLDFTGQET QDQTPPHQFI DNWPKDQSSR SIVTWPNELK PDWTQLSMSI  420
PMVTSEFSST LSSPVKEKLD LSSLRLVQEF DQIQMGLGVN NDITEQTKKQ PNWIPISWGG  480
STGGPLGEIL NNTTNNTGSC QNSSTLTFLS EGLDGNRIQL QNTPFSSLSN SSSGSSPIAE  540
NNKKLLGAAS VPSIIRS*

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}.

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	LN681875	3e-41	LN681875.1 Cucumis melo genomic scaffold, anchoredscaffold00007.
GenBank	LN713262	3e-41	LN713262.1 Cucumis melo genomic chromosome, chr_8.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012469669.1	0.0	PREDICTED: growth-regulating factor 1-like
Swissprot	O81001	1e-118	GRF1_ARATH; Growth-regulating factor 1
TrEMBL	A0A0D2MIR8	0.0	A0A0D2MIR8_GOSRA; Uncharacterized protein
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-120	growth-regulating factor 1

Link Out ? help Back to Top
Phytozome	Gorai.003G032300.1
Entrez Gene	105787697

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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]