PlantPromoterDB promoter information of AT1G17730.1

Summary of Gene (AT1G17730.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G17730 TAIR NCBI
Gene model	AT1G17730.1
Description	VACUOLAR PROTEIN SORTING 46.1 (VPS46.1); INVOLVED IN: vesicle-mediated transport; LOCATED IN: cellular_component unknown; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Snf7 (InterPro:IPR005024); BEST Arabidopsis thaliana protein match is: VPS46.2 (TAIR:AT1G73030.1); Has 975 Blast hits to 975 proteins in 162 species: Archae - 2; Bacteria - 0; Metazoa - 421; Fungi - 185; Plants - 220; Viruses - 0; Other Eukaryotes - 147 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 6098210-6099409)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G17730.1 5'->3' (+) Promoter sequence AT1G17720.1 AT1G17720.2 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 AT1G17730.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 6099048 -162

TSS clone peak A clone + 6099085 -125

TSS clone T clone + 6099099 -111

TSS clone A clone + 6099111 -99

TSS clone A clone + 6099112 -98

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	6099048	-162
TSS clone peak	`A`	clone	+	6099085	-125
TSS clone	`T`	clone	+	6099099	-111
TSS clone	`A`	clone	+	6099111	-99
TSS clone	`A`	clone	+	6099112	-98

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 CCTCTCTTTCT + 6099093 6099103 -117 -107

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	`CCTCTCTTTCT`	+	6099093	6099103	-117	-107
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 TCAGGGGTCAAA + 6098782 6098793 -428 -417

AtREG595 TCAGGGGT     CK PPDB Motif ACCCCT PLACE Motif

AtREG592     GGGTCAAA PPDB Motif PLACE Motif TTGAC, TTGACC

REG TTAAACCGGAT + 6099003 6099013 -207 -197

AtREG473 TTAAACCG    PPDB Motif AACCG(G/A) PLACE Motif

AtREG412 TAAACCGG   PPDB Motif AACCG(G/A) PLACE Motif

AtREG521   AAACCGGA PPDB Motif AACCG(G/A) PLACE Motif

AtREG561    AACCGGAT PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TCAGGGGTCAAA`		+	6098782	6098793	-428	-417
	AtREG595	`TCAGGGGT`	CK	PPDB Motif	`ACCCCT`	PLACE Motif
	AtREG592	`GGGTCAAA`		PPDB Motif		PLACE Motif	`TTGAC, TTGACC`
REG	`TTAAACCGGAT`		+	6099003	6099013	-207	-197
	AtREG473	`TTAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG412	`TAAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG521	`AAACCGGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG561	`AACCGGAT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 4 - 6098355 AT1G17720.1, AT1G17720.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	4	-	6098355	AT1G17720.1, AT1G17720.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 6098333 AT1G17720.1, AT1G17720.2

TSS clone A clone - 6098330 AT1G17720.1, AT1G17720.2

TSS clone T clone - 6098329 AT1G17720.1, AT1G17720.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	6098333	AT1G17720.1, AT1G17720.2
TSS clone	`A`	clone	-	6098330	AT1G17720.1, AT1G17720.2
TSS clone	`T`	clone	-	6098329	AT1G17720.1, AT1G17720.2

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 TTTCTTCTCTC - 6098356 6098366 AT1G17720.1, AT1G17720.2

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	`TTTCTTCTCTC`	-	6098356	6098366	AT1G17720.1, AT1G17720.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG None None None