PlantPromoterDB promoter information of AT2G40490

Summary of Gene (AT2G40490)

Organism	Arabidopsis thaliana
Chromosome	2
Locus	AT2G40490 TAIR NCBI
Gene model	AT2G40490
Description	HEME2; FUNCTIONS IN: uroporphyrinogen decarboxylase activity; INVOLVED IN: porphyrin biosynthetic process; LOCATED IN: chloroplast, chloroplast stroma, chloroplast envelope; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Uroporphyrinogen decarboxylase HemE (InterPro:IPR006361), Uroporphyrinogen decarboxylase (URO-D) (InterPro:IPR000257); BEST Arabidopsis thaliana protein match is: HEME1; uroporphyrinogen decarboxylase (TAIR:AT3G14930.2); Has 5539 Blast hits to 5539 proteins in 1187 species: Archae - 101; Bacteria - 2315; Metazoa - 206; Fungi - 87; Plants - 67; Viruses - 0; Other Eukaryotes - 2763 (source: NCBI BLink).

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Overview

Focused view (chromosome 2: 16911961-16913160)

`Genome position from initiation codon` `AT2G40480.1 AT2G40490.1 TSS from cDNA TSS information AT2G40490 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 AT2G40490

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 8 + 16912876 -85

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	8	+	16912876	-85

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 16912860 -101

TSS clone T clone + 16912861 -100

TSS clone A clone + 16912869 -92

TSS clone G clone + 16912874 -87

TSS clone C clone + 16912883 -78

TSS clone T clone + 16912884 -77

TSS clone A clone + 16912894 -67

TSS clone G clone + 16912899 -62

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	16912860	-101
TSS clone	`T`	clone	+	16912861	-100
TSS clone	`A`	clone	+	16912869	-92
TSS clone	`G`	clone	+	16912874	-87
TSS clone	`C`	clone	+	16912883	-78
TSS clone	`T`	clone	+	16912884	-77
TSS clone	`A`	clone	+	16912894	-67
TSS clone	`G`	clone	+	16912899	-62

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 TCTTCTTC + 16912833 16912840 -128 -121

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	`TCTTCTTC`	+	16912833	16912840	-128	-121
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 AAACCGAACCA + 16912710 16912720 -251 -241

AtREG568 AAACCGAA    PPDB Motif AACCG(G/A) PLACE Motif

AtREG556 AACCGAAC   PPDB Motif AACCG(G/A) PLACE Motif

AtREG451   ACCGAACC PPDB Motif PLACE Motif

AtREG655    CCGAACCA PPDB Motif PLACE Motif

REG ATGACGTGGCAG + 16912754 16912765 -207 -196

AtREG483 ATGACGTG     PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG419 TGACGTGG    PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG388   GACGTGGC   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG379    ACGTGGCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG468     CGTGGCAG ABA PPDB Motif PLACE Motif GCCAC

REG ATCCACGTCAGC + 16912793 16912804 -168 -157

AtREG547 ATCCACGT     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG419   CCACGTCA   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG440    CACGTCAG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG515     ACGTCAGC SA PPDB Motif ACGT PLACE Motif ACGT

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAACCGAACCA`		+	16912710	16912720	-251	-241
	AtREG568	`AAACCGAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG556	`AACCGAAC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG451	`ACCGAACC`		PPDB Motif		PLACE Motif
	AtREG655	`CCGAACCA`		PPDB Motif		PLACE Motif
REG	`ATGACGTGGCAG`		+	16912754	16912765	-207	-196
	AtREG483	`ATGACGTG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG419	`TGACGTGG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, TGACGTGG, CCACGTCA`
	AtREG388	`GACGTGGC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG379	`ACGTGGCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG468	`CGTGGCAG`	ABA	PPDB Motif		PLACE Motif	`GCCAC`
REG	`ATCCACGTCAGC`		+	16912793	16912804	-168	-157
	AtREG547	`ATCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG419	`CCACGTCA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, TGACGTGG, CCACGTCA`
	AtREG440	`CACGTCAG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG515	`ACGTCAGC`	SA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`

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