PlantPromoterDB promoter information of AT3G06710.1

Summary of Gene (AT3G06710.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G06710 TAIR NCBI
Gene model	AT3G06710.1
Description	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: endomembrane system; BEST Arabidopsis thaliana protein match is: zinc ion binding (TAIR:AT4G32670.1); Has 8 Blast hits to 8 proteins in 1 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 8; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

#

Overview

Focused view (chromosome 3: 2117767-2118966)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G06710.1 5'->3' (+) Promoter sequence AT3G06700.1 AT3G06700.2 AT3G06700.3 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 AT3G06710.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 5 + 2118185 -582

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	5	+	2118185	-582

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 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	None	None	None
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 ACGGCGTC + 2117965 2117972 -802 -795

AtREG540 ACGGCGTC PPDB Motif PLACE Motif

REG TATATGGGCCTCT + 2118045 2118057 -722 -710

AtREG620 TATATGGG      PPDB Motif GCCCA PLACE Motif

AtREG432 ATATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG364   TATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    ATGGGCCT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG447     TGGGCCTC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG411      GGGCCTCT PPDB Motif GCCCA PLACE Motif GGGCC

REG ATAAGCCCATTG + 2118085 2118096 -682 -671

AtREG462 ATAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG426 TAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378   AAGCCCAT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372    AGCCCATT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG551     GCCCATTG PPDB Motif GCCCA PLACE Motif

REG GGCCTTTT + 2118114 2118121 -653 -646

AtREG459 GGCCTTTT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ACGGCGTC`		+	2117965	2117972	-802	-795
	AtREG540	`ACGGCGTC`		PPDB Motif		PLACE Motif
REG	`TATATGGGCCTCT`		+	2118045	2118057	-722	-710
	AtREG620	`TATATGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG432	`ATATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG364	`TATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`ATGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG447	`TGGGCCTC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG411	`GGGCCTCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`ATAAGCCCATTG`		+	2118085	2118096	-682	-671
	AtREG462	`ATAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`AAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG551	`GCCCATTG`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GGCCTTTT`		+	2118114	2118121	-653	-646
	AtREG459	`GGCCTTTT`		PPDB Motif		PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 69 - 2117975 AT3G06700.1, AT3G06700.2, AT3G06700.3

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	69	-	2117975	AT3G06700.1, AT3G06700.2, AT3G06700.3

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone - 2117977 AT3G06700.1, AT3G06700.2, AT3G06700.3

TSS clone G clone - 2117975 AT3G06700.1, AT3G06700.2, AT3G06700.3

TSS clone C clone - 2117974 AT3G06700.1, AT3G06700.2, AT3G06700.3

TSS clone G clone - 2117972 AT3G06700.1, AT3G06700.2, AT3G06700.3

TSS clone C clone - 2117968 AT3G06700.1, AT3G06700.2, AT3G06700.3

TSS clone G clone - 2117931 AT3G06700.1, AT3G06700.2, AT3G06700.3

TSS clone T clone - 2117855 AT3G06700.1, AT3G06700.2, AT3G06700.3

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	-	2117977	AT3G06700.1, AT3G06700.2, AT3G06700.3
TSS clone	`G`	clone	-	2117975	AT3G06700.1, AT3G06700.2, AT3G06700.3
TSS clone	`C`	clone	-	2117974	AT3G06700.1, AT3G06700.2, AT3G06700.3
TSS clone	`G`	clone	-	2117972	AT3G06700.1, AT3G06700.2, AT3G06700.3
TSS clone	`C`	clone	-	2117968	AT3G06700.1, AT3G06700.2, AT3G06700.3
TSS clone	`G`	clone	-	2117931	AT3G06700.1, AT3G06700.2, AT3G06700.3
TSS clone	`T`	clone	-	2117855	AT3G06700.1, AT3G06700.2, AT3G06700.3

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box CCACTATAAATT - 2118001 2118012 AT3G06700.1, AT3G06700.2, AT3G06700.3

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	`CCACTATAAATT`	-	2118001	2118012	AT3G06700.1, AT3G06700.2, AT3G06700.3
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 AGAGGCCCATATA - 2118045 2118057 AT3G06700.1, AT3G06700.2, AT3G06700.3

AtREG411 AGAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG447 GAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   AGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364    GGCCCATA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG432     GCCCATAT PPDB Motif GCCCA PLACE Motif

AtREG620      CCCATATA PPDB Motif GCCCA PLACE Motif

REG CAATGGGCTTAT - 2118085 2118096 AT3G06700.1, AT3G06700.2, AT3G06700.3

AtREG551 CAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG372 AATGGGCT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378   ATGGGCTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426    TGGGCTTA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG462     GGGCTTAT PPDB Motif GCCCA PLACE Motif

REG AAAAGGCC - 2118114 2118121 AT3G06700.1, AT3G06700.2, AT3G06700.3

AtREG459 AAAAGGCC PPDB Motif PLACE Motif