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

Rsa1.0_01692.1_g00003.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

SRS

Protein Properties

Length: 397aa MW: 41247.4 Da PI: 8.7175

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01692.1_g00003.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	209.6	7.7e-65	190	350	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa.aeaaskrkrelkskkqsals 87 +gta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + + + a +s +++ +k++r ++q+a+s Rsa1.0_01692.1_g00003.1 190 AGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTGNPTAAGSSPsTSSGTKKPRIA-GSQQQATS 274 6899********************************************999888766666655367777777765.77777888 PP DUF702 88 stklssaeskkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 +t++s++ ++++l+tss +P +v+++avf+cv+v++++dg++e+aYq++v+igGh+fkG+LydqGle Rsa1.0_01692.1_g00003.1 275 HTSTSNT-PPQSLDTSSsrkdggpreaWPGQVKAAAVFKCVKVTAMEDGDDEYAYQAVVKIGGHIFKGFLYDQGLEP 350 8887776.566777777799****************************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.5E-58	192	349	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	2.4E-26	194	236	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	2.1E-29	300	348	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 397 aa Download sequence Send to blast
MVYGSVATTR RHNLPTSDSG AFTDWTAAAA TPSSRATEDL SLGFNAGPAV VHGGLVSASA 60 AAGLPSWPPG SSVRYGLPSA AATEMGMVGL RDVYLVAPAY HHHHHQNAGL VSGSDQINSN 120 AAASLGVGVI PLLTAAPAQQ HQNVEDTDIN FLGNSRRWQN NDSSNNQREY LRFKSTTVAS 180 SSNNSGSGSA GTATCQDCGN QAKKECKQRR CRTCCKSRGF DCSTHVKSTW VSAARRRERQ 240 VMPTGNPTAA GSSPSTSSGT KKPRIAGSQQ QATSHTSTSN TPPQSLDTSS SRKDGGPREA 300 WPGQVKAAAV FKCVKVTAME DGDDEYAYQA VVKIGGHIFK GFLYDQGLEP KEGFPNISDL 360 LLGGGASNHN SVSASPSILD PPNVYGGGGG AGAGFYG

Sequence ? help Back to Top

Protein Sequence Length: 397 aa Download sequence Send to blast

MVYGSVATTR RHNLPTSDSG AFTDWTAAAA TPSSRATEDL SLGFNAGPAV VHGGLVSASA  60
AAGLPSWPPG SSVRYGLPSA AATEMGMVGL RDVYLVAPAY HHHHHQNAGL VSGSDQINSN  120
AAASLGVGVI PLLTAAPAQQ HQNVEDTDIN FLGNSRRWQN NDSSNNQREY LRFKSTTVAS  180
SSNNSGSGSA GTATCQDCGN QAKKECKQRR CRTCCKSRGF DCSTHVKSTW VSAARRRERQ  240
VMPTGNPTAA GSSPSTSSGT KKPRIAGSQQ QATSHTSTSN TPPQSLDTSS SRKDGGPREA  300
WPGQVKAAAV FKCVKVTAME DGDDEYAYQA VVKIGGHIFK GFLYDQGLEP KEGFPNISDL  360
LLGGGASNHN SVSASPSILD PPNVYGGGGG AGAGFYG

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 influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18835563}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01692.1_g00003.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269\|PubMed:18835563}.

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	GU205266	0.0	GU205266.1 Brassica rapa subsp. pekinensis lateral root primordium 1 (LRP1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018469892.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1-like
Swissprot	Q94CK9	1e-142	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A3N6S233	0.0	A0A3N6S233_BRACR; Uncharacterized protein (Fragment)
STRING	Bo2g010890.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5883	26	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.4	1e-149	Lateral root primordium (LRP) protein-related

Publications ? help Back to Top
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]