PlantPromoterDB promoter information of AT1G12840.1

Summary of Gene (AT1G12840.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G12840 TAIR NCBI
Gene model	AT1G12840.1
Description	Encodes subunit C of the vacuolar H(+)-ATPase (V-ATPase). Bound and phosphorylated by AtWNK8.

#

Overview

Focused view (chromosome 1: 4374584-4375783)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G12840.1 5'->3' (+) Promoter sequence AT1G12830.1 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 AT1G12840.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 46 + 4375515 -69

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	46	+	4375515	-69

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone + 4375516 -68

TSS clone G clone + 4375517 -67

TSS clone C clone + 4375518 -66

TSS clone A clone + 4375519 -65

TSS clone G clone + 4375572 -12

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	+	4375516	-68
TSS clone	`G`	clone	+	4375517	-67
TSS clone	`C`	clone	+	4375518	-66
TSS clone	`A`	clone	+	4375519	-65
TSS clone	`G`	clone	+	4375572	-12

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 GTATATAAT + 4375483 4375491 -101 -93

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	`GTATATAAT`	+	4375483	4375491	-101	-93
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 TTGGCCCAGTATTAGCCCATTTA + 4375228 4375250 -356 -334

AtREG484 TTGGCCCA                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG458 TGGCCCAG               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG384   GGCCCAGT              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG434    GCCCAGTA             PPDB Motif GCCCA PLACE Motif

AtREG571            TTAGCCCA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG581             TAGCCCAT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372              AGCCCATT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG386               GCCCATTT PPDB Motif GCCCA PLACE Motif

AtREG443                CCCATTTA PPDB Motif GCCCA PLACE Motif

REG AAAACCGGAC + 4375333 4375342 -251 -242

AtREG542 AAAACCGG   PPDB Motif AACCG(G/A) PLACE Motif

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

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

REG GTGGCAAT + 4375369 4375376 -215 -208

AtREG654 GTGGCAAT PPDB Motif PLACE Motif GCCAC

REG TTAAACCGG + 4375433 4375441 -151 -143

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

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

REG ACCGGTTTG + 4375459 4375467 -125 -117

AtREG436 ACCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

AtREG496 CCGGTTTG PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTGGCCCAGTATTAGCCCATTTA`		+	4375228	4375250	-356	-334
	AtREG484	`TTGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG458	`TGGCCCAG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG384	`GGCCCAGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG434	`GCCCAGTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG571	`TTAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG581	`TAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG443	`CCCATTTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`AAAACCGGAC`		+	4375333	4375342	-251	-242
	AtREG542	`AAAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG521	`AAACCGGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG573	`AACCGGAC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`GTGGCAAT`		+	4375369	4375376	-215	-208
	AtREG654	`GTGGCAAT`		PPDB Motif		PLACE Motif	`GCCAC`
REG	`TTAAACCGG`		+	4375433	4375441	-151	-143
	AtREG473	`TTAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG412	`TAAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`ACCGGTTTG`		+	4375459	4375467	-125	-117
	AtREG436	`ACCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG496	`CCGGTTTG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif

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

TSS clone peak T clone - 4375169 AT1G12830.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`T`	clone	-	4375169	AT1G12830.1

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 TAAATGGGCTAATACTGGGCCAA - 4375228 4375250 AT1G12830.1

AtREG443 TAAATGGG                PPDB Motif GCCCA PLACE Motif

AtREG386 AAATGGGC               PPDB Motif GCCCA PLACE Motif

AtREG372   AATGGGCT              PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG581    ATGGGCTA             PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG571     TGGGCTAA            PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG434             TACTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG384              ACTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG458               CTGGGCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG484                TGGGCCAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG GTCCGGTTTT - 4375333 4375342 AT1G12830.1

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

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

AtREG542   CCGGTTTT PPDB Motif AACCG(G/A) PLACE Motif

REG ATTGCCAC - 4375369 4375376 AT1G12830.1

AtREG654 ATTGCCAC PPDB Motif PLACE Motif GCCAC

REG CCGGTTTAA - 4375433 4375441 AT1G12830.1

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

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

REG CAAACCGGT - 4375459 4375467 AT1G12830.1

AtREG496 CAAACCGG PPDB Motif AACCG(G/A) PLACE Motif

AtREG436 AAACCGGT PPDB Motif AACCG(G/A) PLACE Motif