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

GSVIVT01024206001

Organism

Vitis vinifera

Taxonomic ID

29760

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis

Family

SRS

Protein Properties

Length: 228aa MW: 25091.9 Da PI: 10.1295

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01024206001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	188.6	2.3e-58	30	167	3	153
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssa 94 s + sCqdCGnqakkdC h+RCRtCCk rgf+C+thvkstWvp+++rr+rqq+l a++ ++ + +++r ++s t+++ + GSVIVT01024206001 30 SRSLSCQDCGNQAKKDCLHMRCRTCCKGRGFQCQTHVKSTWVPVYRRRQRQQHLPATTVPQQL--L--QGHNPRP-------TSSGTTVAPT 110 56789*********************************************99997655432..2..2223332.......2222333333 PP DUF702 95 eskkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGle 153 + + +++++P+evss+a+fr+vrv+s+d++ +++aYqtav igGh+fkGiLyd+G+e GSVIVT01024206001 111 TDP--HKARNFPAEVSSPAMFRRVRVNSIDNAVDQYAYQTAVIIGGHIFKGILYDEGPE 167 333..46779*********************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	4.1E-58	33	167	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.3E-27	34	76	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	4.6E-24	119	166	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 228 aa Download sequence Send to blast
MATVVVCWCL KKLAKPPSFV MMLMMRQGGS RSLSCQDCGN QAKKDCLHMR CRTCCKGRGF 60 QCQTHVKSTW VPVYRRRQRQ QHLPATTVPQ QLLQGHNPRP TSSGTTVAPT TDPHKARNFP 120 AEVSSPAMFR RVRVNSIDNA VDQYAYQTAV IIGGHIFKGI LYDEGPEIQF IGGGESLFPQ 180 LQQPTIVAST FTAAMELLHP SSSYPINSTS TTTAPVPGTH VIPHRRS*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In germinating seeds, first detected at about 48 h after imbibition. In young seedlings grown in continuous light, present in the root/shoot transition zone, in the apex, and in the apical region of the cotyledons. Later observed in lateral root primordia and in emerging lateral roots, particularly in the root tips, as well as in the shoot apex and in the new leaves, especially in the apical and lateral hydathodes. In adult plants, accumulates in lateral root tips, lateral root primordia, and axillary shoot primordia. In flowers, expressed in the style and stigmatic surface of the pistil and in the receptacle (base) of the flower throughout the development of the pistil until anthesis and later in the silique. Fades out after fertilization. {ECO:0000269\|PubMed:11706176, ECO:0000269\|PubMed:16740146}.
Uniprot	TISSUE SPECIFICITY: Expressed in young organs such as shoot apices and root tips. Present in roots, stems, flowers, leaves, hydathodes and siliques. {ECO:0000269\|PubMed:10368174, ECO:0000269\|PubMed:11706176}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influences vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Suppressor of the gibberellin (GA) signal transduction. {ECO:0000269\|PubMed:10368174, ECO:0000269\|PubMed:11706176, ECO:0000269\|PubMed:16740146}.

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	AM460226	0.0	AM460226.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X077132.15, clone ENTAV 115.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010647684.2	1e-136	PREDICTED: protein SHORT INTERNODES
Swissprot	Q9XGX0	9e-50	SHI_ARATH; Protein SHORT INTERNODES
TrEMBL	F6I1A1	1e-153	F6I1A1_VITVI; Uncharacterized protein
STRING	VIT_03s0038g00310.t01	1e-154	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP1313	15	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66350.1	4e-52	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	GSVIVT01024206001

Publications ? help Back to Top
Islam MA, et al. Overexpression of the AtSHI gene in poinsettia, Euphorbia pulcherrima, results in compact plants. PLoS ONE, 2013. 8(1): p. e53377 [PMID:23308204] Pfannebecker KC,Lange M,Rupp O,Becker A An Evolutionary Framework for Carpel Developmental Control Genes. Mol. Biol. Evol., 2017. 34(2): p. 330-348 [PMID:28049761] Estornell LH,Landberg K,Cierlik I,Sundberg E SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis. Front Plant Sci, 2018. 9: p. 150 [PMID:29491878]