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

Csa08g004500.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 396aa MW: 41187 Da PI: 7.9854

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa08g004500.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	205.3	1.7e-63	180	348	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa.aeaaskrkrel.....kskkqsalsstk 90 +sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + + ++ +a +s +++ +k++r ++++q+a+s+t+ Csa08g004500.1 180 ASGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPSGPNPTAGSSLsTSSGTKKPRIVgsqqqQQQQQQATSHTS 274 57999***********************************************99999888887756777888887666543444555555555 PP DUF702 91 lssaeskkeletss...........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 +s++ +++++etss +P +++++avf+cvrv++v+dg++e+aYq+ v+igGhv kG+LydqGle Csa08g004500.1 275 TSNT-PPQSFETSSsrqdgggsreaWPGQIRAPAVFKCVRVTAVEDGDDEYAYQAIVKIGGHVCKGFLYDQGLEP 348 5544.66778887789******************************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	9.0E-57	183	347	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	2.4E-26	185	227	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	2.2E-28	298	346	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0048364	Biological Process	root development
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 396 aa Download sequence Send to blast
VATTRRHNLP TSDSGAFTDW AAATTTTSSL ATEDLSLGFN AGPAVVHGGL GSASAAADVP 60 SWHPGSSVRY GLQSSSAATD MGMVGLRDVF LVAPAYHHHQ NAGVISGPEA AALGVGVVPL 120 LTAGPPQQNV EDTDINFLGN NRRWQNNNNN HETQYLQFKS TNQTAVGTSS NNNSGSGSGA 180 SGTATCQDCG NQAKKECKQR RCRTCCKSRG FDCSTHVKST WVSAARRRER QVMPSGPNPT 240 AGSSLSTSSG TKKPRIVGSQ QQQQQQQQAT SHTSTSNTPP QSFETSSSRQ DGGGSREAWP 300 GQIRAPAVFK CVRVTAVEDG DDEYAYQAIV KIGGHVCKGF LYDQGLEPKE GFPNMSDLHL 360 GGAANNHNGV SASAPILEQP NVYGGGGGSG GGFYG*

Sequence ? help Back to Top

Protein Sequence Length: 396 aa Download sequence Send to blast

VATTRRHNLP TSDSGAFTDW AAATTTTSSL ATEDLSLGFN AGPAVVHGGL GSASAAADVP  60
SWHPGSSVRY GLQSSSAATD MGMVGLRDVF LVAPAYHHHQ NAGVISGPEA AALGVGVVPL  120
LTAGPPQQNV EDTDINFLGN NRRWQNNNNN HETQYLQFKS TNQTAVGTSS NNNSGSGSGA  180
SGTATCQDCG NQAKKECKQR RCRTCCKSRG FDCSTHVKST WVSAARRRER QVMPSGPNPT  240
AGSSLSTSSG TKKPRIVGSQ QQQQQQQQAT SHTSTSNTPP QSFETSSSRQ DGGGSREAWP  300
GQIRAPAVFK CVRVTAVEDG DDEYAYQAIV KIGGHVCKGF LYDQGLEPKE GFPNMSDLHL  360
GGAANNHNGV SASAPILEQP NVYGGGGGSG GGFYG*

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	Csa08g004500.1

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	BT020614	0.0	BT020614.1 Arabidopsis thaliana At5g12330 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010419822.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	1e-162	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	R0HF13	0.0	R0HF13_9BRAS; Uncharacterized protein
STRING	XP_010419822.1	0.0	(Camelina sativa)

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	0.0	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]