PlantPromoterDB promoter information of AT1G10600.3

Summary of Gene (AT1G10600.3)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G10600 TAIR NCBI
Gene model	AT1G10600.3
Description	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: ubiquitin-dependent protein catabolic process; LOCATED IN: chloroplast; EXPRESSED IN: cultured cell; CONTAINS InterPro DOMAIN/s: Mov34/MPN/PAD-1 (InterPro:IPR000555); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT4G16144.1); Has 753 Blast hits to 752 proteins in 167 species: Archae - 0; Bacteria - 0; Metazoa - 359; Fungi - 199; Plants - 115; Viruses - 0; Other Eukaryotes - 80 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 3502765-3503964)

`Genome position from initiation codon` `AT1G10600.1 AT1G10600.2 TSS from cDNA TSS information AT1G10600.3 5'->3' (+) Promoter sequence AT1G10590.1 AT1G10590.2 AT1G10590.3 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 AT1G10600.3

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 4 + 3503667 -98

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	4	+	3503667	-98

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone + 3503704 -61

TSS clone A clone + 3503725 -40

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	+	3503704	-61
TSS clone	`A`	clone	+	3503725	-40

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 CTCTCCTCTCCT + 3503704 3503715 -61 -50

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	`CTCTCCTCTCCT`	+	3503704	3503715	-61	-50
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 AACACGTGTCAT + 3503511 3503522 -254 -243

AtREG590 AACACGTG     ABA, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG366   CACGTGTC   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG389    ACGTGTCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG438     CGTGTCAT ABA PPDB Motif PLACE Motif

REG TACCCTTA + 3503548 3503555 -217 -210

AtREG570 TACCCTTA PPDB Motif ACCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AACACGTGTCAT`		+	3503511	3503522	-254	-243
	AtREG590	`AACACGTG`	ABA, JA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACACNNG`
	AtREG366	`CACGTGTC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC`
	AtREG389	`ACGTGTCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG438	`CGTGTCAT`	ABA	PPDB Motif		PLACE Motif
REG	`TACCCTTA`		+	3503548	3503555	-217	-210
	AtREG570	`TACCCTTA`		PPDB Motif	`ACCCT`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak C 4 - 3503413 AT1G10590.1, AT1G10590.3, AT1G10590.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`C`	4	-	3503413	AT1G10590.1, AT1G10590.3, AT1G10590.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 3503452 AT1G10590.1, AT1G10590.3, AT1G10590.2

TSS clone C clone - 3503451 AT1G10590.1, AT1G10590.3, AT1G10590.2

TSS clone C clone - 3503450 AT1G10590.1, AT1G10590.3, AT1G10590.2

TSS clone G clone - 3503432 AT1G10590.1, AT1G10590.3, AT1G10590.2

TSS clone C clone - 3503431 AT1G10590.1, AT1G10590.3, AT1G10590.2

TSS clone A clone - 3503426 AT1G10590.1, AT1G10590.3, AT1G10590.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	3503452	AT1G10590.1, AT1G10590.3, AT1G10590.2
TSS clone	`C`	clone	-	3503451	AT1G10590.1, AT1G10590.3, AT1G10590.2
TSS clone	`C`	clone	-	3503450	AT1G10590.1, AT1G10590.3, AT1G10590.2
TSS clone	`G`	clone	-	3503432	AT1G10590.1, AT1G10590.3, AT1G10590.2
TSS clone	`C`	clone	-	3503431	AT1G10590.1, AT1G10590.3, AT1G10590.2
TSS clone	`A`	clone	-	3503426	AT1G10590.1, AT1G10590.3, AT1G10590.2

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TGTGTATAT - 3503434 3503442 AT1G10590.1, AT1G10590.2, AT1G10590.3

Y Patch TCTCTTCTCTC - 3503385 3503395 AT1G10590.1, AT1G10590.2, AT1G10590.3

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	`TGTGTATAT`	-	3503434	3503442	AT1G10590.1, AT1G10590.2, AT1G10590.3
Y Patch	`TCTCTTCTCTC`	-	3503385	3503395	AT1G10590.1, AT1G10590.2, AT1G10590.3
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG ATGACACGTGTT - 3503511 3503522 AT1G10590.1, AT1G10590.2, AT1G10590.3

AtREG438 ATGACACG     ABA PPDB Motif PLACE Motif

AtREG389 TGACACGT    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG366   GACACGTG   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG590     CACGTGTT ABA, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

REG TAAGGGTA - 3503548 3503555 AT1G10590.1, AT1G10590.2, AT1G10590.3

AtREG570 TAAGGGTA PPDB Motif ACCCT PLACE Motif

REG TGAACCGGTTT - 3503665 3503675 AT1G10590.1, AT1G10590.2, AT1G10590.3

AtREG480 TGAACCGG    PPDB Motif AACCG(G/A) PLACE Motif

AtREG528 GAACCGGT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG436    ACCGGTTT PPDB Motif AACCG(G/A) PLACE Motif