PlantPromoterDB promoter information of AT5G05000.1

Summary of Gene (AT5G05000.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G05000 TAIR NCBI
Gene model	AT5G05000.1
Description	Outer membrane protein that may function in import of nuclear encoded proteins into the chloroplast.

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Overview

Focused view (chromosome 5: 1476772-1475573)

`Genome position from initiation codon` `AT5G05000.2 AT5G05000.3 TSS from cDNA TSS information AT5G05000.1 5'->3' (-) Promoter sequence AT5G05010.1 AT5G05010.2 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 AT5G05000.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 2 - 1476362 -590

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	2	-	1476362	-590

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone - 1476409 -637

TSS clone C clone - 1476407 -635

TSS clone T clone - 1476377 -605

TSS clone T clone - 1476306 -534

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	-	1476409	-637
TSS clone	`C`	clone	-	1476407	-635
TSS clone	`T`	clone	-	1476377	-605
TSS clone	`T`	clone	-	1476306	-534

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 TTCGGTTTAGTCCGGTT - 1476427 1476443 -655 -671

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

AtREG514 TCGGTTTA         PPDB Motif AACCG(G/A) PLACE Motif

AtREG511   CGGTTTAG        PPDB Motif AACCG(G/A) PLACE Motif

AtREG573          GTCCGGTT PPDB Motif AACCG(G/A) PLACE Motif

REG CTTATTGGGCTTT - 1476510 1476522 -738 -750

AtREG611 CTTATTGG      PPDB Motif PLACE Motif

AtREG417 TTATTGGG     PPDB Motif GCCCA PLACE Motif

AtREG355   TATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG402    ATTGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407     TTGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376      TGGGCTTT PPDB Motif GCCCA PLACE Motif TGGGCY

REG TCTGGGCCGTT - 1476530 1476540 -758 -768

AtREG397 TCTGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG368   TGGGCCGT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG377    GGGCCGTT PPDB Motif GCCCA, AAACG(C/G) PLACE Motif GGGCC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTCGGTTTAGTCCGGTT`		-	1476427	1476443	-655	-671
	AtREG568	`TTCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG514	`TCGGTTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG511	`CGGTTTAG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG573	`GTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`CTTATTGGGCTTT`		-	1476510	1476522	-738	-750
	AtREG611	`CTTATTGG`		PPDB Motif		PLACE Motif
	AtREG417	`TTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG402	`ATTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`TTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG376	`TGGGCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TCTGGGCCGTT`		-	1476530	1476540	-758	-768
	AtREG397	`TCTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG368	`TGGGCCGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG377	`GGGCCGTT`		PPDB Motif	`GCCCA, AAACG(C/G)`	PLACE Motif	`GGGCC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 5 + 1476601 AT5G05010.1, AT5G05010.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	5	+	1476601	AT5G05010.1, AT5G05010.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone C clone + 1476586 AT5G05010.1, AT5G05010.2

TSS clone T clone + 1476613 AT5G05010.1, AT5G05010.2

TSS clone A clone + 1476621 AT5G05010.1, AT5G05010.2

TSS clone G clone + 1476625 AT5G05010.1, AT5G05010.2

TSS clone G clone + 1476626 AT5G05010.1, AT5G05010.2

TSS clone C clone + 1476627 AT5G05010.1, AT5G05010.2

TSS clone G clone + 1476649 AT5G05010.1, AT5G05010.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	+	1476586	AT5G05010.1, AT5G05010.2
TSS clone	`T`	clone	+	1476613	AT5G05010.1, AT5G05010.2
TSS clone	`A`	clone	+	1476621	AT5G05010.1, AT5G05010.2
TSS clone	`G`	clone	+	1476625	AT5G05010.1, AT5G05010.2
TSS clone	`G`	clone	+	1476626	AT5G05010.1, AT5G05010.2
TSS clone	`C`	clone	+	1476627	AT5G05010.1, AT5G05010.2
TSS clone	`G`	clone	+	1476649	AT5G05010.1, AT5G05010.2

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 ACCCTAGA + 1476346 1476353 AT5G05010.1, AT5G05010.2

AtREG658 ACCCTAGA PPDB Motif ACCCT PLACE Motif

REG TTGACTTT + 1476361 1476368 AT5G05010.1, AT5G05010.2

AtREG632 TTGACTTT PPDB Motif PLACE Motif TTGAC

REG AACCGGACTAAACCGAA + 1476427 1476443 AT5G05010.1, AT5G05010.2

AtREG573 AACCGGAC          PPDB Motif AACCG(G/A) PLACE Motif

AtREG511        CTAAACCG   PPDB Motif AACCG(G/A) PLACE Motif

AtREG514         TAAACCGA PPDB Motif AACCG(G/A) PLACE Motif

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

REG AAAGCCCAATAAG + 1476510 1476522 AT5G05010.1, AT5G05010.2

AtREG376 AAAGCCCA      PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407 AAGCCCAA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402   AGCCCAAT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG355    GCCCAATA   PPDB Motif GCCCA PLACE Motif

AtREG417     CCCAATAA PPDB Motif GCCCA PLACE Motif

AtREG611      CCAATAAG PPDB Motif PLACE Motif

REG AACGGCCCAGA + 1476530 1476540 AT5G05010.1, AT5G05010.2

AtREG377 AACGGCCC    PPDB Motif GCCCA, AAACG(C/G) PLACE Motif GGGCC

AtREG368 ACGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG397    GGCCCAGA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY