PlantPromoterDB promoter information of AT1G20340

Summary of Gene (AT1G20340)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G20340 TAIR NCBI
Gene model	AT1G20340
Description	recombination and DNA-damage resistance protein (DRT112) One of two Arabidopsis plastocyanin genes. Predominant form, expressed 10x higher than PETE1. PETE2 is thought to be post-transcriptionally regulated via copper accumulation and is involved in copper homeostasis.

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Overview

Focused view (chromosome 1: 7044273-7043074)

`Genome position from initiation codon` `AT1G20340.1 TSS from cDNA TSS information AT1G20340 5'->3' (-) Promoter sequence AT1G20350.1 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 AT1G20340

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 1435 - 7043326 -53

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	1435	-	7043326	-53

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone - 7043396 -123

TSS clone C clone - 7043392 -119

TSS clone T clone - 7043387 -114

TSS clone T clone - 7043382 -109

TSS clone C clone - 7043373 -100

TSS clone T clone - 7043372 -99

TSS clone T clone - 7043370 -97

TSS clone A clone - 7043364 -91

TSS clone C clone - 7043363 -90

TSS clone T clone - 7043358 -85

TSS clone T clone - 7043348 -75

TSS clone C clone - 7043334 -61

TSS clone C clone - 7043328 -55

TSS clone A clone - 7043326 -53

TSS clone A clone - 7043325 -52

TSS clone A clone - 7043324 -51

TSS clone C clone - 7043323 -50

TSS clone A clone - 7043321 -48

TSS clone A clone - 7043320 -47

TSS clone C clone - 7043316 -43

TSS clone A clone - 7043313 -40

TSS clone A clone - 7043283 -10

TSS clone T clone - 7043281 -8

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	-	7043396	-123
TSS clone	`C`	clone	-	7043392	-119
TSS clone	`T`	clone	-	7043387	-114
TSS clone	`T`	clone	-	7043382	-109
TSS clone	`C`	clone	-	7043373	-100
TSS clone	`T`	clone	-	7043372	-99
TSS clone	`T`	clone	-	7043370	-97
TSS clone	`A`	clone	-	7043364	-91
TSS clone	`C`	clone	-	7043363	-90
TSS clone	`T`	clone	-	7043358	-85
TSS clone	`T`	clone	-	7043348	-75
TSS clone	`C`	clone	-	7043334	-61
TSS clone	`C`	clone	-	7043328	-55
TSS clone	`A`	clone	-	7043326	-53
TSS clone	`A`	clone	-	7043325	-52
TSS clone	`A`	clone	-	7043324	-51
TSS clone	`C`	clone	-	7043323	-50
TSS clone	`A`	clone	-	7043321	-48
TSS clone	`A`	clone	-	7043320	-47
TSS clone	`C`	clone	-	7043316	-43
TSS clone	`A`	clone	-	7043313	-40
TSS clone	`A`	clone	-	7043283	-10
TSS clone	`T`	clone	-	7043281	-8

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 TTTCTCTCTTTC - 7043365 7043376 -92 -103

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	`TTTCTCTCTTTC`	-	7043365	7043376	-92	-103
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 ACGTGGAC - 7043506 7043513 -233 -240

AtREG513 ACGTGGAC ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG AAAACGCCACGTCAT - 7043538 7043552 -265 -279

AtREG650 AAAACGCC        PPDB Motif AAACG(C/G) PLACE Motif

AtREG508    ACGCCACG     PPDB Motif PLACE Motif GCCAC

AtREG371     CGCCACGT    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG388      GCCACGTC   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG419       CCACGTCA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG483        CACGTCAT PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG CAAAGCCCATTAAGGCCCATTT - 7043585 7043606 -312 -333

AtREG559 CAAAGCCC               PPDB Motif GCCCA PLACE Motif

AtREG376 AAAGCCCA              PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378   AAGCCCAT             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

AtREG604       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

AtREG361              GGCCCATT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG386               GCCCATTT PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ACGTGGAC`		-	7043506	7043513	-233	-240
	AtREG513	`ACGTGGAC`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`AAAACGCCACGTCAT`		-	7043538	7043552	-265	-279
	AtREG650	`AAAACGCC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG508	`ACGCCACG`		PPDB Motif		PLACE Motif	`GCCAC`
	AtREG371	`CGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG388	`GCCACGTC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG419	`CCACGTCA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, TGACGTGG, CCACGTCA`
	AtREG483	`CACGTCAT`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`CAAAGCCCATTAAGGCCCATTT`		-	7043585	7043606	-312	-333
	AtREG559	`CAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`AAGCCCAT`		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`
	AtREG604	`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`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	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 GTCCACGT + 7043506 7043513 AT1G20350.1

AtREG513 GTCCACGT ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG ATGACGTGGCGTTTT + 7043538 7043552 AT1G20350.1

AtREG483 ATGACGTG        PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG419 TGACGTGG       PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG388   GACGTGGC      PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG371    ACGTGGCG     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG508     CGTGGCGT    PPDB Motif PLACE Motif GCCAC

AtREG650        GGCGTTTT PPDB Motif AAACG(C/G) PLACE Motif

REG AAATGGGCCTTAATGGGCTTTG + 7043585 7043606 AT1G20350.1

AtREG386 AAATGGGC               PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT             PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT            PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG351     GGGCCTTA           PPDB Motif GCCCA PLACE Motif GGGCC

AtREG416      GGCCTTAA          PPDB Motif PLACE Motif

AtREG604         CTTAATGG       PPDB Motif PLACE Motif TTAATGG

AtREG396          TTAATGGG      PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357           TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG372            AATGGGCT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378             ATGGGCTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376              TGGGCTTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG559               GGGCTTTG PPDB Motif GCCCA PLACE Motif