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

XP_013618618.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 307aa MW: 32392.7 Da PI: 8.5636

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013618618.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	204.8	2.4e-63	106	262	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaesk 97 +gta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + ++a s+ ++++ +k++r ++q+a+s+t++s++ ++ XP_013618618.1 106 AGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTTAGSSP---STSSGTKKPRIA-GAQQQATSHTSTSNT-PP 195 6899********************************************99888875555...457788888876.666677777776666.56 PP DUF702 98 keletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ++++tss +P +v+++avf+cv+v++++dg +e+aYq++v+igGh+fkG+LydqGle XP_013618618.1 196 QSFDTSSsqkdggsreaWPGQVKAAAVFKCVKVTAMEDGGDEYAYQAVVKIGGHIFKGFLYDQGLEP 262 677777778999999***********************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	6.5E-57	108	261	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.7E-26	110	152	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.0E-28	212	260	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 307 aa Download sequence Send to blast
MGMVGLRDVY LVAPAYHHHQ NVGLVAGSDQ INSNAAAASL GVGVIPLLTA AQAQQQHQIV 60 EDTDINFLGN SRRWQNNDSS NNQTEYLHFK STTVASTSNN SGSGSAGTAT CQDCGNQAKK 120 ECKQRRCRTC CKSRGFDCST HVKSTWVSAA RRRERQVMPT TAGSSPSTSS GTKKPRIAGA 180 QQQATSHTST SNTPPQSFDT SSSQKDGGSR EAWPGQVKAA AVFKCVKVTA MEDGGDEYAY 240 QAVVKIGGHI FKGFLYDQGL EPKEGFPNMS DLHLGGGASN HNGVSASQPI LDPPNVYGGG 300 AGAGFYS

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	XP_013618618.1

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_013618618.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1-like
Swissprot	Q94CK9	1e-146	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A0D3AIQ6	0.0	A0A0D3AIQ6_BRAOL; Uncharacterized protein
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
AT5G12330.2	1e-127	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]