PlantPromoterDB promoter information of AT5G08280.1

Summary of Gene (AT5G08280.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G08280 TAIR NCBI
Gene model	AT5G08280.1
Description	Encodes a protein with porphobilinogen deaminase activity. This protein is targeted to the chloroplast.

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Overview

Focused view (chromosome 5: 2666596-2665397)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G08280.1 5'->3' (-) Promoter sequence AT5G08290.1 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 AT5G08280.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 28 - 2665719 -123

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	28	-	2665719	-123

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 2665726 -130

TSS clone T clone - 2665707 -111

TSS clone A clone - 2665705 -109

TSS clone G clone - 2665695 -99

TSS clone T clone - 2665683 -87

TSS clone C clone - 2665619 -23

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	2665726	-130
TSS clone	`T`	clone	-	2665707	-111
TSS clone	`A`	clone	-	2665705	-109
TSS clone	`G`	clone	-	2665695	-99
TSS clone	`T`	clone	-	2665683	-87
TSS clone	`C`	clone	-	2665619	-23

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 TCTCTCTTC - 2665670 2665678 -74 -82

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	`TCTCTCTTC`	-	2665670	2665678	-74	-82
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 CCGGCCCAATAA - 2665858 2665869 -262 -273

AtREG457 CCGGCCCA     CK PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414 CGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352   GGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355    GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG417     CCCAATAA PPDB Motif GCCCA PLACE Motif

REG GTTTGGGCTAAGCCC - 2665887 2665901 -291 -305

AtREG474 GTTTGGGC        PPDB Motif GCCCA PLACE Motif

AtREG469 TTTGGGCT       PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG571    TGGGCTAA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG634        CTAAGCCC PPDB Motif GCCCA PLACE Motif

REG CGCGTGAA - 2665913 2665920 -317 -324

AtREG631 CGCGTGAA Drought PPDB Motif PLACE Motif

REG CGGCGCGT - 2665929 2665936 -333 -340

AtREG538 CGGCGCGT PPDB Motif ACGCGC PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CCGGCCCAATAA`		-	2665858	2665869	-262	-273
	AtREG457	`CCGGCCCA`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG414	`CGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG417	`CCCAATAA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GTTTGGGCTAAGCCC`		-	2665887	2665901	-291	-305
	AtREG474	`GTTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG469	`TTTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG571	`TGGGCTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG634	`CTAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CGCGTGAA`		-	2665913	2665920	-317	-324
	AtREG631	`CGCGTGAA`	Drought	PPDB Motif		PLACE Motif
REG	`CGGCGCGT`		-	2665929	2665936	-333	-340
	AtREG538	`CGGCGCGT`		PPDB Motif	`ACGCGC`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 68 + 2666000 AT5G08290.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	68	+	2666000	AT5G08290.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone + 2665978 AT5G08290.1

TSS clone A clone + 2665979 AT5G08290.1

TSS clone G clone + 2665995 AT5G08290.1

TSS clone A clone + 2665996 AT5G08290.1

TSS clone A clone + 2666001 AT5G08290.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	+	2665978	AT5G08290.1
TSS clone	`A`	clone	+	2665979	AT5G08290.1
TSS clone	`G`	clone	+	2665995	AT5G08290.1
TSS clone	`A`	clone	+	2665996	AT5G08290.1
TSS clone	`A`	clone	+	2666001	AT5G08290.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box AATATAAAAT + 2665962 2665971 AT5G08290.1

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	`AATATAAAAT`	+	2665962	2665971	AT5G08290.1
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 TTATTGGGCCGG + 2665858 2665869 AT5G08290.1

AtREG417 TTATTGGG     PPDB Motif GCCCA PLACE Motif

AtREG355 TATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414    TTGGGCCG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG457     TGGGCCGG CK PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG GGGCTTAGCCCAAAC + 2665887 2665901 AT5G08290.1

AtREG634 GGGCTTAG        PPDB Motif GCCCA PLACE Motif

AtREG571     TTAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469       AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG474        GCCCAAAC PPDB Motif GCCCA PLACE Motif

REG TTCACGCG + 2665913 2665920 AT5G08290.1

AtREG631 TTCACGCG Drought PPDB Motif PLACE Motif

REG ACGCGCCG + 2665929 2665936 AT5G08290.1

AtREG538 ACGCGCCG PPDB Motif ACGCGC PLACE Motif

REG TAGGGCTT + 2666552 2666559 AT5G08300.1

AtREG651 TAGGGCTT PPDB Motif PLACE Motif