PlantPromoterDB promoter information of AT1G80170

Summary of Gene (AT1G80170)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G80170 TAIR NCBI
Gene model	AT1G80170
Description	polygalacturonase, putative / pectinase, putative; FUNCTIONS IN: polygalacturonase activity; INVOLVED IN: carbohydrate metabolic process; LOCATED IN: plant-type cell wall; EXPRESSED IN: 15 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: Pectin lyase fold/virulence factor (InterPro:IPR011050), Pectin lyase fold (InterPro:IPR012334), Glycoside hydrolase, family 28 (InterPro:IPR000743), Parallel beta-helix repeat (InterPro:IPR006626); BEST Arabidopsis thaliana protein match is: polygalacturonase, putative / pectinase, putative (TAIR:AT1G70500.1); Has 2438 Blast hits to 2429 proteins in 297 species: Archae - 2; Bacteria - 459; Metazoa - 8; Fungi - 992; Plants - 896; Viruses - 0; Other Eukaryotes - 81 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 30157633-30156434)

`Genome position from initiation codon` `AT1G80180.1 TSS from cDNA TSS information AT1G80170 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 AT1G80170

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 - 30155772 -89

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	-	30155772	-89

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone - 30155713 -30

TSS clone A clone - 30155692 -9

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	-	30155713	-30
TSS clone	`A`	clone	-	30155692	-9

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 - 30155797 30155805 -114 -122

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	`TTATAAATA`	-	30155797	30155805	-114	-122
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 CGTCATTT - 30155887 30155894 -204 -211

AtREG657 CGTCATTT PPDB Motif PLACE Motif

REG GGGTCAAA - 30156056 30156063 -373 -380

AtREG592 GGGTCAAA PPDB Motif PLACE Motif TTGAC, TTGACC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CGTCATTT`		-	30155887	30155894	-204	-211
	AtREG657	`CGTCATTT`		PPDB Motif		PLACE Motif
REG	`GGGTCAAA`		-	30156056	30156063	-373	-380
	AtREG592	`GGGTCAAA`		PPDB Motif		PLACE Motif	`TTGAC, TTGACC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 60 - 30157574 AT1G80180.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	60	-	30157574	AT1G80180.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 30157603 AT1G80180.1

TSS clone A clone - 30157579 AT1G80180.1

TSS clone G clone - 30157578 AT1G80180.1

TSS clone A clone - 30157573 AT1G80180.1

TSS clone C clone - 30157568 AT1G80180.1

TSS clone C clone - 30157555 AT1G80180.1

TSS clone A clone - 30157530 AT1G80180.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	30157603	AT1G80180.1
TSS clone	`A`	clone	-	30157579	AT1G80180.1
TSS clone	`G`	clone	-	30157578	AT1G80180.1
TSS clone	`A`	clone	-	30157573	AT1G80180.1
TSS clone	`C`	clone	-	30157568	AT1G80180.1
TSS clone	`C`	clone	-	30157555	AT1G80180.1
TSS clone	`A`	clone	-	30157530	AT1G80180.1

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 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