PlantPromoterDB promoter information of AT3G01280.1

Summary of Gene (AT3G01280.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G01280 TAIR NCBI
Gene model	AT3G01280.1
Description	Encodes a voltage-dependent anion channel (VDAC: AT3G01280/VDAC1, AT5G67500/VDAC2, AT5G15090/VDAC3, AT5G57490/VDAC4, AT5G15090/VDAC5). VDACs are reported to be porin-type, beta-barrel diffusion pores. They are prominently localized in the outer mitochondrial membrane and are involved in metabolite exchange between the organelle and the cytosol.

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Overview

Focused view (chromosome 3: 84754-85953)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G01280.1 5'->3' (+) Promoter sequence AT3G01270.1 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 AT3G01280.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 + 85649 -105

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	+	85649	-105

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 85613 -141

TSS clone T clone + 85616 -138

TSS clone A clone + 85637 -117

TSS clone G clone + 85638 -116

TSS clone T clone + 85664 -90

TSS clone G clone + 85692 -62

TSS clone T clone + 85694 -60

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	85613	-141
TSS clone	`T`	clone	+	85616	-138
TSS clone	`A`	clone	+	85637	-117
TSS clone	`G`	clone	+	85638	-116
TSS clone	`T`	clone	+	85664	-90
TSS clone	`G`	clone	+	85692	-62
TSS clone	`T`	clone	+	85694	-60

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 TCTTTCTCT + 85600 85608 -154 -146

Y Patch TCTCTCTCTCTT + 85651 85662 -103 -92

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	`TCTTTCTCT`	+	85600	85608	-154	-146
Y Patch	`TCTCTCTCTCTT`	+	85651	85662	-103	-92
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 TAAACGACGCCGTTTA + 85445 85460 -309 -294

AtREG565 TAAACGAC         PPDB Motif PLACE Motif

AtREG415 AAACGACG        PPDB Motif PLACE Motif

AtREG439   AACGACGC       PPDB Motif PLACE Motif

AtREG537    ACGACGCC      PPDB Motif PLACE Motif

AtREG540      GACGCCGT    PPDB Motif PLACE Motif

AtREG497       ACGCCGTT   PPDB Motif AAACG(C/G), CCAACGG PLACE Motif

AtREG524        CGCCGTTT PPDB Motif AAACG(C/G) PLACE Motif

AtREG613         GCCGTTTA PPDB Motif AAACG(C/G) PLACE Motif

REG TTGCCACGTA + 85462 85471 -292 -283

AtREG452 TTGCCACG   PPDB Motif PLACE Motif GCCAC

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

AtREG413   GCCACGTA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

REG ATCCAACGG + 85556 85564 -198 -190

AtREG586 ATCCAACG PPDB Motif CCAACGG PLACE Motif

AtREG554 TCCAACGG PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TAAACGACGCCGTTTA`		+	85445	85460	-309	-294
	AtREG565	`TAAACGAC`		PPDB Motif		PLACE Motif
	AtREG415	`AAACGACG`		PPDB Motif		PLACE Motif
	AtREG439	`AACGACGC`		PPDB Motif		PLACE Motif
	AtREG537	`ACGACGCC`		PPDB Motif		PLACE Motif
	AtREG540	`GACGCCGT`		PPDB Motif		PLACE Motif
	AtREG497	`ACGCCGTT`		PPDB Motif	`AAACG(C/G), CCAACGG`	PLACE Motif
	AtREG524	`CGCCGTTT`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG613	`GCCGTTTA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`TTGCCACGTA`		+	85462	85471	-292	-283
	AtREG452	`TTGCCACG`		PPDB Motif		PLACE Motif	`GCCAC`
	AtREG379	`TGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG413	`GCCACGTA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
REG	`ATCCAACGG`		+	85556	85564	-198	-190
	AtREG586	`ATCCAACG`		PPDB Motif	`CCAACGG`	PLACE Motif
	AtREG554	`TCCAACGG`		PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 8 - 84894 AT3G01270.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	8	-	84894	AT3G01270.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 84894 AT3G01270.1

TSS clone A clone - 84892 AT3G01270.1

TSS clone A clone - 84891 AT3G01270.1

TSS clone C clone - 84877 AT3G01270.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	84894	AT3G01270.1
TSS clone	`A`	clone	-	84892	AT3G01270.1
TSS clone	`A`	clone	-	84891	AT3G01270.1
TSS clone	`C`	clone	-	84877	AT3G01270.1

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