PlantPromoterDB promoter information of AT1G56070.1

Summary of Gene (AT1G56070.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G56070 TAIR NCBI
Gene model	AT1G56070.1
Description	encodes a translation elongation factor 2-like protein that is involved in cold-induced translation. Mutations in this gene specifically blocks low temperature-induced transcription of cold-responsive genes but induces the expression of CBF genes and mutants carrying the recessive mutations fail to acclimate to cold and is freezing sensitive.

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Overview

Focused view (chromosome 1: 20972077-20970878)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G56070.1 5'->3' (-) Promoter sequence 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 AT1G56070.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 366 - 20971706 -629

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	366	-	20971706	-629

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 20971742 -665

TSS clone T clone - 20971711 -634

TSS clone C clone - 20971709 -632

TSS clone T clone - 20971708 -631

TSS clone G clone - 20971706 -629

TSS clone C clone - 20971705 -628

TSS clone A clone - 20971704 -627

TSS clone T clone - 20971699 -622

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	20971742	-665
TSS clone	`T`	clone	-	20971711	-634
TSS clone	`C`	clone	-	20971709	-632
TSS clone	`T`	clone	-	20971708	-631
TSS clone	`G`	clone	-	20971706	-629
TSS clone	`C`	clone	-	20971705	-628
TSS clone	`A`	clone	-	20971704	-627
TSS clone	`T`	clone	-	20971699	-622

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 ACTATATAAT - 20971738 20971747 -661 -670

Y Patch TCTTTCTCTCT - 20971669 20971679 -592 -602

Y Patch TCTTTCTCTC - 20971687 20971696 -610 -619

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	`ACTATATAAT`	-	20971738	20971747	-661	-670
Y Patch	`TCTTTCTCTCT`	-	20971669	20971679	-592	-602
Y Patch	`TCTTTCTCTC`	-	20971687	20971696	-610	-619
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 ATTGGCCCATTAAGGCCCATTAAG - 20971804 20971827 -727 -750

AtREG446 ATTGGCCC                 CK PPDB Motif GCCCA PLACE Motif GGGCC

AtREG484 TTGGCCCA                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490   TGGCCCAT               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT  GGCCCATT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357     GCCCATTA  GCCCATTA   PPDB Motif GCCCA PLACE Motif

AtREG396      CCCATTAA  CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG604       CCATTAAG  CCATTAAG PPDB Motif PLACE Motif TTAATGG

AtREG416          TTAAGGCC        PPDB Motif PLACE Motif

AtREG351           TAAGGCCC       PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353            AAGGCCCA      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354             AGGCCCAT     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG ATTGGCCC - 20971835 20971842 -758 -765

AtREG446 ATTGGCCC CK PPDB Motif GCCCA PLACE Motif GGGCC

REG TGGGCTCA - 20971887 20971894 -810 -817

AtREG485 TGGGCTCA PPDB Motif GCCCA PLACE Motif TGGGCY

REG TCGGTTTAC - 20971980 20971988 -903 -911

AtREG514 TCGGTTTA PPDB Motif AACCG(G/A) PLACE Motif

AtREG519 CGGTTTAC PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATTGGCCCATTAAGGCCCATTAAG`		-	20971804	20971827	-727	-750
	AtREG446	`ATTGGCCC`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG484	`TTGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`TGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG357	`GCCCATTA GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG396	`CCCATTAA CCCATTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
	AtREG604	`CCATTAAG CCATTAAG`		PPDB Motif		PLACE Motif	`TTAATGG`
	AtREG416	`TTAAGGCC`		PPDB Motif		PLACE Motif
	AtREG351	`TAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`ATTGGCCC`		-	20971835	20971842	-758	-765
	AtREG446	`ATTGGCCC`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`TGGGCTCA`		-	20971887	20971894	-810	-817
	AtREG485	`TGGGCTCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TCGGTTTAC`		-	20971980	20971988	-903	-911
	AtREG514	`TCGGTTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG519	`CGGTTTAC`		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

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 None None None