PlantPromoterDB promoter information of AT3G11240.1

Summary of Gene (AT3G11240.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G11240 TAIR NCBI
Gene model	AT3G11240.1
Description	Encodes an arginyl-tRNA:protein arginyltransferase (ATE2), a component of the N-end rule pathway that targets protein degradation through the identity of the amino-terminal residue of specific protein substrates. Arabidopsis contains two ATE genes: At5g05700/ATE1, At3g11240/ATE2. Another component of the N-end rule pathway is At5g02310/PROTEOLYSIS6 (PRT6). PRT6 and ATE were shown to regulate seed after-ripening, seedling sugar sensitivity, seedling lipid breakdown, and abscisic acid (ABA) sensitivity of germination.

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Overview

Focused view (chromosome 3: 3522092-3520893)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G11240.1 5'->3' (-) Promoter sequence AT3G11250.1 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 AT3G11240.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 4 - 3521115 -23

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	4	-	3521115	-23

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 3521115 -23

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	3521115	-23

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 TTCTCTCC - 3521097 3521104 -5 -12

Y Patch CTTCTTCTCCTTCTTCTTC - 3521142 3521160 -50 -68

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	`TTCTCTCC`	-	3521097	3521104	-5	-12
Y Patch	`CTTCTTCTCCTTCTTCTTC`	-	3521142	3521160	-50	-68
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 CGTGTCGTT - 3521196 3521204 -104 -112

AtREG428 CGTGTCGT ABA, DREB1Aox, Ethylene, Drought PPDB Motif PLACE Motif

AtREG527 GTGTCGTT DREB1Aox PPDB Motif PLACE Motif

REG ACACGCGTGACGT - 3521229 3521241 -137 -149

AtREG536 ACACGCGT      ABA, Drought PPDB Motif PLACE Motif ACACNNG

AtREG489      CGTGACGT ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT

REG ATTAGGCCCAAAT - 3521252 3521264 -160 -172

AtREG506 ATTAGGCC      PPDB Motif PLACE Motif

AtREG360 TTAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358   TAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    AGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373     GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG421      GCCCAAAT PPDB Motif GCCCA PLACE Motif

REG AATTGGGCTTTAA - 3521270 3521282 -178 -190

AtREG418 AATTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG402 ATTGGGCT     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

AtREG545      GGCTTTAA PPDB Motif PLACE Motif

REG TCTGACGG - 3521303 3521310 -211 -218

AtREG622 TCTGACGG PPDB Motif PLACE Motif

REG CTAACGGT - 3521337 3521344 -245 -252

AtREG603 CTAACGGT PPDB Motif PLACE Motif YAACKG, CNGTTR

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CGTGTCGTT`		-	3521196	3521204	-104	-112
	AtREG428	`CGTGTCGT`	ABA, DREB1Aox, Ethylene, Drought	PPDB Motif		PLACE Motif
	AtREG527	`GTGTCGTT`	DREB1Aox	PPDB Motif		PLACE Motif
REG	`ACACGCGTGACGT`		-	3521229	3521241	-137	-149
	AtREG536	`ACACGCGT`	ABA, Drought	PPDB Motif		PLACE Motif	`ACACNNG`
	AtREG489	`CGTGACGT`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
REG	`ATTAGGCCCAAAT`		-	3521252	3521264	-160	-172
	AtREG506	`ATTAGGCC`		PPDB Motif		PLACE Motif
	AtREG360	`TTAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`AGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG421	`GCCCAAAT`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`AATTGGGCTTTAA`		-	3521270	3521282	-178	-190
	AtREG418	`AATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG402	`ATTGGGCT`		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
	AtREG545	`GGCTTTAA`		PPDB Motif		PLACE Motif
REG	`TCTGACGG`		-	3521303	3521310	-211	-218
	AtREG622	`TCTGACGG`		PPDB Motif		PLACE Motif
REG	`CTAACGGT`		-	3521337	3521344	-245	-252
	AtREG603	`CTAACGGT`		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 13 + 3521407 AT3G11250.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	13	+	3521407	AT3G11250.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone + 3521390 AT3G11250.1

TSS clone A clone + 3521406 AT3G11250.1

TSS clone G clone + 3521420 AT3G11250.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	+	3521390	AT3G11250.1
TSS clone	`A`	clone	+	3521406	AT3G11250.1
TSS clone	`G`	clone	+	3521420	AT3G11250.1

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 CTTCCTTC + 3521370 3521377 AT3G11250.1

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	`CTTCCTTC`	+	3521370	3521377	AT3G11250.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AACGACACG + 3521196 3521204 AT3G11250.1

AtREG527 AACGACAC DREB1Aox PPDB Motif PLACE Motif

AtREG428 ACGACACG ABA, DREB1Aox, Ethylene, Drought PPDB Motif PLACE Motif

REG ACGTCACGCGTGT + 3521229 3521241 AT3G11250.1

AtREG489 ACGTCACG      ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT

AtREG536      ACGCGTGT ABA, Drought PPDB Motif PLACE Motif ACACNNG

REG ATTTGGGCCTAAT + 3521252 3521264 AT3G11250.1

AtREG421 ATTTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   TTGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358    TGGGCCTA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG360     GGGCCTAA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG506      GGCCTAAT PPDB Motif PLACE Motif

REG TTAAAGCCCAATT + 3521270 3521282 AT3G11250.1

AtREG545 TTAAAGCC      PPDB Motif PLACE Motif

AtREG365 TAAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407    AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402     AGCCCAAT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG418      GCCCAATT PPDB Motif GCCCA PLACE Motif

REG CCGTCAGA + 3521303 3521310 AT3G11250.1

AtREG622 CCGTCAGA PPDB Motif PLACE Motif

REG ACCGTTAG + 3521337 3521344 AT3G11250.1

AtREG603 ACCGTTAG PPDB Motif PLACE Motif YAACKG, CNGTTR