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

GSBRNA2T00104181001

Common Name

GSBRNA2T00104181001, LOC106424569

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 304aa MW: 32217.4 Da PI: 8.565

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00104181001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	207.2	4.5e-64	103	256	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrel...kskkqsalsst 89 sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + +a++s+ +++ + s+++++ +s++++ +s GSBRNA2T00104181001 103 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTASTSSGTKKLRIVGSQQQQQAtshTSTSNTPPQSF 192 7899**********************************************99999888888775444444444311022233333333 PP DUF702 90 klssaeskkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 +ss+ + + + +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle GSBRNA2T00104181001 193 DTSSS-RRDGGPREAWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 256 33332.333455566*********************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.8E-57	105	255	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.7E-26	107	149	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.5E-30	206	254	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 304 aa Download sequence Send to blast
MGMVGLRDVY LVAPGYHHQN AGVVSGSDQI NSNASLGVGM IPLLTAAPPH QQNVEDTDIN 60 FLGDSRRWQN NNSNQTQYLH FKSAHQTAVA SSSNNSGSGS AASGTATCQD CGNQAKKECK 120 QRRCRTCCKS RGFDCSTHVK STWVSAARRR ERQVMPTAST SSGTKKLRIV GSQQQQQATS 180 HTSTSNTPPQ SFDTSSSRRD GGPREAWPGQ VRAAAVFKCV RVTAVEDGDD EYAYQAVVKI 240 GGHVFKGFLY DQGLEPKEGF PNMSDLHLGG GADNNNGVSV ASQPNLDPPP NVYGGGGSGG 300 FYG*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269\|PubMed:7647564}.
Uniprot	TISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269\|PubMed:7647564}.

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	GSBRNA2T00104181001

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013607283.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Refseq	XP_013607284.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Refseq	XP_013607285.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Refseq	XP_013720784.1	0.0	protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	1e-150	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A3P6DR43	0.0	A0A3P6DR43_BRAOL; Uncharacterized protein
STRING	Bo9g169460.1	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
AT5G12330.2	1e-141	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Entrez Gene	106424569

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]