PlantPromoterDB promoter information of AT5G48490

Summary of Gene (AT5G48490)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G48490 TAIR NCBI
Gene model	AT5G48490
Description	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein; FUNCTIONS IN: lipid binding; INVOLVED IN: lipid transport; LOCATED IN: endomembrane system; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Bifunctional inhibitor/plant lipid transfer protein/seed storage (InterPro:IPR016140), Plant lipid transfer protein/seed storage/trypsin-alpha amylase inhibitor (InterPro:IPR003612); BEST Arabidopsis thaliana protein match is: DIR1 (DEFECTIVE IN INDUCED RESISTANCE 1); lipid binding / lipid transporter (TAIR:AT5G48485.1); Has 118 Blast hits to 118 proteins in 14 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 118; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 19645337-19644138)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G48490 5'->3' (-) Promoter sequence AT5G48470.1 AT5G48480.1 TSS from cDNA TSS information 3'->5' (+) Promoter sequence TSS tag distribution(+) TSS tag distribution(-)`	Your web browser cannot display this window!

ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGC

Promoter Summary of AT5G48490

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 5 - 19648281 -44

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	5	-	19648281	-44

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 19648280 -43

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	19648280	-43

Core promoter information

Type Sequence Genome position Position from initiation codon

Strand Start End Start End

initiator Not Available Not Available Not Available

TATA Box None None None

Y Patch None None None

GA None None None

Inr None None None

Type	Sequence	Genome position	Position from initiation codon
		Strand	Start	End	Start	End
initiator	Not Available	Not Available	Not Available
TATA Box	None	None	None
Y Patch	None	None	None
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Position from initiation codon

Strand Start End Start End

REG AATACCCT - 19648373 19648380 -136 -143

AtREG567 AATACCCT PPDB Motif ACCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AATACCCT`		-	19648373	19648380	-136	-143
	AtREG567	`AATACCCT`		PPDB Motif	`ACCCT`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 42 + 19644744 AT5G48480.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	42	+	19644744	AT5G48480.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 19644737 AT5G48480.1

TSS clone T clone + 19644740 AT5G48480.1

TSS clone A clone + 19644744 AT5G48480.1

TSS clone C clone + 19644745 AT5G48480.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	19644737	AT5G48480.1
TSS clone	`T`	clone	+	19644740	AT5G48480.1
TSS clone	`A`	clone	+	19644744	AT5G48480.1
TSS clone	`C`	clone	+	19644745	AT5G48480.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box None None None

Y Patch CTTCCTTC + 19644699 19644706 AT5G48480.1

Y Patch TTTCTCTCTT + 19644758 19644767 AT5G48480.1

Y Patch TCTCTCTTCTC + 19644781 19644791 AT5G48480.1

GA None None None

Inr None None None

Type	Sequence	Genome position	Gene model
		Strand	Start	End
initiator	Not Available	Not Available	Not Available
TATA Box	None	None	None
Y Patch	`CTTCCTTC`	+	19644699	19644706	AT5G48480.1
Y Patch	`TTTCTCTCTT`	+	19644758	19644767	AT5G48480.1
Y Patch	`TCTCTCTTCTC`	+	19644781	19644791	AT5G48480.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TCCAACGGTTTAA + 19644508 19644520 AT5G48480.1

AtREG554 TCCAACGG      PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

AtREG652     ACGGTTTA PPDB Motif PLACE Motif

AtREG473      CGGTTTAA PPDB Motif AACCG(G/A) PLACE Motif

REG TAAGGGTA + 19644612 19644619 AT5G48480.1

AtREG570 TAAGGGTA PPDB Motif ACCCT PLACE Motif