PlantPromoterDB promoter information of AT4G39980.1

Summary of Gene (AT4G39980.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G39980 TAIR NCBI
Gene model	AT4G39980.1
Description	Encodes a 2-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase, which catalyzes the first committed step in aromatic amino acid biosynthesis. Gene expression is induced by wounding and pathogenic bacteria Pseudomonas syringae.

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Overview

Focused view (chromosome 4: 18538654-18539853)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G39980.1 5'->3' (+) Promoter sequence 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 AT4G39980.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 + 18539581 -73

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	+	18539581	-73

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 18539567 -87

TSS clone T clone + 18539572 -82

TSS clone T clone + 18539576 -78

TSS clone A clone + 18539581 -73

TSS clone A clone + 18539583 -71

TSS clone T clone + 18539584 -70

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	18539567	-87
TSS clone	`T`	clone	+	18539572	-82
TSS clone	`T`	clone	+	18539576	-78
TSS clone	`A`	clone	+	18539581	-73
TSS clone	`A`	clone	+	18539583	-71
TSS clone	`T`	clone	+	18539584	-70

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 TTATAAATA + 18539537 18539545 -117 -109

Y Patch CCTTCTTCTCTTTC + 18539546 18539559 -108 -95

Y Patch TCTTCTCTCTCCTC + 18539567 18539580 -87 -74

Y Patch TTCTCTCTCTCTCT + 18539606 18539619 -48 -35

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	`TTATAAATA`	+	18539537	18539545	-117	-109
Y Patch	`CCTTCTTCTCTTTC`	+	18539546	18539559	-108	-95
Y Patch	`TCTTCTCTCTCCTC`	+	18539567	18539580	-87	-74
Y Patch	`TTCTCTCTCTCTCT`	+	18539606	18539619	-48	-35
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 CGGTTCAA + 18539290 18539297 -364 -357

AtREG640 CGGTTCAA PPDB Motif AACCG(G/A) PLACE Motif

REG TTTAACGG + 18539370 18539377 -284 -277

AtREG610 TTTAACGG PPDB Motif PLACE Motif YAACKG, CNGTTR

REG TTCCACGTCG + 18539398 18539407 -256 -247

AtREG627 TTCCACGT PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG465 CCACGTCG PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG AAATACCCC + 18539441 18539449 -213 -205

AtREG602 AAATACCC PPDB Motif PLACE Motif

AtREG614 AATACCCC PPDB Motif ACCCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CGGTTCAA`		+	18539290	18539297	-364	-357
	AtREG640	`CGGTTCAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TTTAACGG`		+	18539370	18539377	-284	-277
	AtREG610	`TTTAACGG`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`
REG	`TTCCACGTCG`		+	18539398	18539407	-256	-247
	AtREG627	`TTCCACGT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG465	`CCACGTCG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`AAATACCCC`		+	18539441	18539449	-213	-205
	AtREG602	`AAATACCC`		PPDB Motif		PLACE Motif
	AtREG614	`AATACCCC`		PPDB Motif	`ACCCCT`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 None None None

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	None	None	None
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG None None None