PlantPromoterDB promoter information of AT3G02555.1

Summary of Gene (AT3G02555.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G02555 TAIR NCBI
Gene model	AT3G02555.1
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT5G16110.1); Has 62 Blast hits to 62 proteins in 11 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 62; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 541955-540756)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G02555.1 5'->3' (-) Promoter sequence AT3G02560.1 AT3G02560.2 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 AT3G02555.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 - 541842 -887

TSS peak G 4 - 541512 -557

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	-	541842	-887
TSS peak	`G`	4	-	541512	-557

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone - 541486 -531

TSS clone T clone - 541485 -530

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	-	541486	-531
TSS clone	`T`	clone	-	541485	-530

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 TTTCTTCTTCTCTTTC - 541474 541489 -519 -534

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	`TTTCTTCTTCTCTTTC`	-	541474	541489	-519	-534
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 TAGCCCATTAA - 541608 541618 -653 -663

AtREG581 TAGCCCAT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372 AGCCCATT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG357   GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG396    CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

REG CAATGGGCCCAATG - 541636 541649 -681 -694

AtREG551 CAATGGGC       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

AtREG352      GGCCCAAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG461       GCCCAATG PPDB Motif GCCCA PLACE Motif

REG AAATGGGCCGTTAAA - 541652 541666 -697 -711

AtREG386 AAATGGGC        PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC       PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380   ATGGGCCG      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

AtREG610        CCGTTAAA PPDB Motif PLACE Motif YAACKG, CNGTTR

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TAGCCCATTAA`		-	541608	541618	-653	-663
	AtREG581	`TAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG396	`CCCATTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
REG	`CAATGGGCCCAATG`		-	541636	541649	-681	-694
	AtREG551	`CAATGGGC`		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`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG461	`GCCCAATG`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`AAATGGGCCGTTAAA`		-	541652	541666	-697	-711
	AtREG386	`AAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG380	`ATGGGCCG`		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`
	AtREG610	`CCGTTAAA`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 5 + 541747 AT3G02560.1, AT3G02560.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	5	+	541747	AT3G02560.1, AT3G02560.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 541750 AT3G02560.1, AT3G02560.2

TSS clone G clone + 541752 AT3G02560.1, AT3G02560.2

TSS clone C clone + 541753 AT3G02560.1, AT3G02560.2

TSS clone C clone + 541754 AT3G02560.1, AT3G02560.2

TSS clone T clone + 541755 AT3G02560.1, AT3G02560.2

TSS clone C clone + 541757 AT3G02560.1, AT3G02560.2

TSS clone T clone + 541759 AT3G02560.1, AT3G02560.2

TSS clone C clone + 541766 AT3G02560.1, AT3G02560.2

TSS clone A clone + 541786 AT3G02560.1, AT3G02560.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	541750	AT3G02560.1, AT3G02560.2
TSS clone	`G`	clone	+	541752	AT3G02560.1, AT3G02560.2
TSS clone	`C`	clone	+	541753	AT3G02560.1, AT3G02560.2
TSS clone	`C`	clone	+	541754	AT3G02560.1, AT3G02560.2
TSS clone	`T`	clone	+	541755	AT3G02560.1, AT3G02560.2
TSS clone	`C`	clone	+	541757	AT3G02560.1, AT3G02560.2
TSS clone	`T`	clone	+	541759	AT3G02560.1, AT3G02560.2
TSS clone	`C`	clone	+	541766	AT3G02560.1, AT3G02560.2
TSS clone	`A`	clone	+	541786	AT3G02560.1, AT3G02560.2

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 TTAATGGGCTA + 541608 541618 AT3G02560.1, AT3G02560.2

AtREG396 TTAATGGG    PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357 TAATGGGC   PPDB Motif GCCCA PLACE Motif

AtREG372   AATGGGCT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG581    ATGGGCTA PPDB Motif GCCCA PLACE Motif TGGGCY

REG CATTGGGCCCATTG + 541636 541649 AT3G02560.1, AT3G02560.2

AtREG461 CATTGGGC       PPDB Motif GCCCA PLACE Motif

AtREG352 ATTGGGCC      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

AtREG551       GCCCATTG PPDB Motif GCCCA PLACE Motif

REG TTTAACGGCCCATTT + 541652 541666 AT3G02560.1, AT3G02560.2

AtREG610 TTTAACGG        PPDB Motif PLACE Motif YAACKG, CNGTTR

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

AtREG368     ACGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380      CGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361       GGCCCATT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG386        GCCCATTT PPDB Motif GCCCA PLACE Motif