PlantPromoterDB promoter information of AT1G10590.1

Summary of Gene (AT1G10590.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G10590 TAIR NCBI
Gene model	AT1G10590.1
Description	DNA-binding protein-related; FUNCTIONS IN: nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: plasma membrane; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), Nucleic acid-binding, OB-fold (InterPro:IPR012340), Nucleic acid binding, OB-fold, tRNA/helicase-type (InterPro:IPR004365); BEST Arabidopsis thaliana protein match is: DNA-binding protein-related (TAIR:AT1G23750.1); Has 139 Blast hits to 139 proteins in 35 species: Archae - 30; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 96; Viruses - 0; Other Eukaryotes - 13 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 3503991-3502792)

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

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak C 4 - 3503413 -422

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`C`	4	-	3503413	-422

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 3503452 -461

TSS clone C clone - 3503451 -460

TSS clone C clone - 3503450 -459

TSS clone G clone - 3503432 -441

TSS clone C clone - 3503431 -440

TSS clone A clone - 3503426 -435

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	3503452	-461
TSS clone	`C`	clone	-	3503451	-460
TSS clone	`C`	clone	-	3503450	-459
TSS clone	`G`	clone	-	3503432	-441
TSS clone	`C`	clone	-	3503431	-440
TSS clone	`A`	clone	-	3503426	-435

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 TGTGTATAT - 3503434 3503442 -443 -451

Y Patch TCTCTTCTCTC - 3503385 3503395 -394 -404

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	`TGTGTATAT`	-	3503434	3503442	-443	-451
Y Patch	`TCTCTTCTCTC`	-	3503385	3503395	-394	-404
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 ATGACACGTGTT - 3503511 3503522 -520 -531

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 -557 -564

AtREG570 TAAGGGTA PPDB Motif ACCCT PLACE Motif

REG TGAACCGGTTT - 3503665 3503675 -674 -684

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

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATGACACGTGTT`		-	3503511	3503522	-520	-531
	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	-557	-564
	AtREG570	`TAAGGGTA`		PPDB Motif	`ACCCT`	PLACE Motif
REG	`TGAACCGGTTT`		-	3503665	3503675	-674	-684
	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

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 4 + 3503667 AT1G10600.1, AT1G10600.2, AT1G10600.3

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	4	+	3503667	AT1G10600.1, AT1G10600.2, AT1G10600.3

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone C clone + 3503704 AT1G10600.1, AT1G10600.2, AT1G10600.3

TSS clone A clone + 3503725 AT1G10600.1, AT1G10600.2, AT1G10600.3

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	+	3503704	AT1G10600.1, AT1G10600.2, AT1G10600.3
TSS clone	`A`	clone	+	3503725	AT1G10600.1, AT1G10600.2, AT1G10600.3

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 CTCTCCTCTCCT + 3503704 3503715 AT1G10600.1, AT1G10600.2, AT1G10600.3

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	None	None	None
Y Patch	`CTCTCCTCTCCT`	+	3503704	3503715	AT1G10600.1, AT1G10600.2, AT1G10600.3
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AACACGTGTCAT + 3503511 3503522 AT1G10600.1, AT1G10600.2, AT1G10600.3

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 AT1G10600.1, AT1G10600.2, AT1G10600.3

AtREG570 TACCCTTA PPDB Motif ACCCT PLACE Motif