PlantPromoterDB promoter information of AT3G15420.1

Summary of Gene (AT3G15420.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G15420 TAIR NCBI
Gene model	AT3G15420.1
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT1G80745.1); Has 17 Blast hits to 17 proteins in 5 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 17; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

#

Overview

Focused view (chromosome 3: 5209289-5208090)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G15420.1 5'->3' (-) Promoter sequence AT3G15430.1 AT3G15430.2 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 AT3G15420.1

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 peak T clone - 5208358 -69

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`T`	clone	-	5208358	-69

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 TCTTCCTCT - 5208380 5208388 -91 -99

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	`TCTTCCTCT`	-	5208380	5208388	-91	-99
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 TAATGGGCCCAAAA - 5208471 5208484 -182 -195

AtREG357 TAATGGGC       PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG391   ATGGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG422    TGGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392     GGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373      GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG529       GCCCAAAA PPDB Motif GCCCA PLACE Motif

REG TTTTGGGCTTTA - 5208493 5208504 -204 -215

AtREG529 TTTTGGGC     PPDB Motif GCCCA PLACE Motif

AtREG469 TTTGGGCT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   TTGGGCTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376    TGGGCTTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG365     GGGCTTTA PPDB Motif GCCCA PLACE Motif

REG ATCGGCCC - 5208511 5208518 -222 -229

AtREG555 ATCGGCCC PPDB Motif GCCCA PLACE Motif GGGCC

REG TGACACGTGGAA - 5208543 5208554 -254 -265

AtREG389 TGACACGT     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG366 GACACGTG    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG382   ACACGTGG   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG408    CACGTGGA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

AtREG627     ACGTGGAA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG TCCGGTTTAG - 5208590 5208599 -301 -310

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

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

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

REG TTTCCGGTTC - 5208618 5208627 -329 -338

AtREG644 TTTCCGGT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG534 TTCCGGTT PPDB Motif AACCG(G/A) PLACE Motif

AtREG579   TCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TAATGGGCCCAAAA`		-	5208471	5208484	-182	-195
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG391	`ATGGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG422	`TGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`GGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG529	`GCCCAAAA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTTTGGGCTTTA`		-	5208493	5208504	-204	-215
	AtREG529	`TTTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG469	`TTTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`TTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG376	`TGGGCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG365	`GGGCTTTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`ATCGGCCC`		-	5208511	5208518	-222	-229
	AtREG555	`ATCGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`TGACACGTGGAA`		-	5208543	5208554	-254	-265
	AtREG389	`TGACACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG366	`GACACGTG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC`
	AtREG382	`ACACGTGG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACACNNG`
	AtREG408	`CACGTGGA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG`
	AtREG627	`ACGTGGAA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`TCCGGTTTAG`		-	5208590	5208599	-301	-310
	AtREG521	`TCCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG412	`CCGGTTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG511	`CGGTTTAG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TTTCCGGTTC`		-	5208618	5208627	-329	-338
	AtREG644	`TTTCCGGT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG534	`TTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG579	`TCCGGTTC`		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 A 2 + 5208737 AT3G15430.1, AT3G15430.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	2	+	5208737	AT3G15430.1, AT3G15430.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone C clone + 5208738 AT3G15430.1, AT3G15430.2

TSS clone A clone + 5208744 AT3G15430.1, AT3G15430.2

TSS clone T clone + 5208916 AT3G15430.1, AT3G15430.2

TSS clone T clone + 5208920 AT3G15430.1, AT3G15430.2

TSS clone G clone + 5209020 AT3G15430.1, AT3G15430.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	+	5208738	AT3G15430.1, AT3G15430.2
TSS clone	`A`	clone	+	5208744	AT3G15430.1, AT3G15430.2
TSS clone	`T`	clone	+	5208916	AT3G15430.1, AT3G15430.2
TSS clone	`T`	clone	+	5208920	AT3G15430.1, AT3G15430.2
TSS clone	`G`	clone	+	5209020	AT3G15430.1, AT3G15430.2

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 TTTTGGGCCCATTA + 5208471 5208484 AT3G15430.1, AT3G15430.2

AtREG529 TTTTGGGC       PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392   TTGGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG422    TGGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG391     GGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361      GGCCCATT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357       GCCCATTA PPDB Motif GCCCA PLACE Motif

REG TAAAGCCCAAAA + 5208493 5208504 AT3G15430.1, AT3G15430.2

AtREG365 TAAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG376 AAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469    AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG529     GCCCAAAA PPDB Motif GCCCA PLACE Motif

REG GGGCCGAT + 5208511 5208518 AT3G15430.1, AT3G15430.2

AtREG555 GGGCCGAT PPDB Motif GCCCA PLACE Motif GGGCC

REG TTCCACGTGTCA + 5208543 5208554 AT3G15430.1, AT3G15430.2

AtREG627 TTCCACGT     PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG408 TCCACGTG    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

AtREG382   CCACGTGT   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG366    CACGTGTC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG389     ACGTGTCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

REG CTAAACCGGA + 5208590 5208599 AT3G15430.1, AT3G15430.2

AtREG511 CTAAACCG   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

REG GAACCGGAAA + 5208618 5208627 AT3G15430.1, AT3G15430.2

AtREG579 GAACCGGA   PPDB Motif AACCG(G/A) PLACE Motif

AtREG534 AACCGGAA PPDB Motif AACCG(G/A) PLACE Motif

AtREG644   ACCGGAAA PPDB Motif AACCG(G/A) PLACE Motif