PlantPromoterDB promoter information of AT5G66520.1

Summary of Gene (AT5G66520.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G66520 TAIR NCBI
Gene model	AT5G66520.1
Description	pentatricopeptide (PPR) repeat-containing protein; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 18 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pentatricopeptide repeat (InterPro:IPR002885); BEST Arabidopsis thaliana protein match is: pentatricopeptide (PPR) repeat-containing protein (TAIR:AT5G06540.1); Has 14737 Blast hits to 5344 proteins in 184 species: Archae - 1; Bacteria - 4; Metazoa - 109; Fungi - 73; Plants - 14158; Viruses - 0; Other Eukaryotes - 392 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 26550879-26552078)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G66520.1 5'->3' (+) Promoter sequence AT5G66510.1 AT5G66510.2 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 AT5G66520.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 None None None

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	None	None	None
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 ATCCGGTTCA + 26551659 26551668 -220 -211

AtREG561 ATCCGGTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG579 TCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

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

REG TCGCCACGTCAC + 26551731 26551742 -148 -137

AtREG471 TCGCCACG     ABA 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

AtREG466     CACGTCAC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG AAACGGCA + 26551765 26551772 -114 -107

AtREG500 AAACGGCA PPDB Motif AAACG(C/G) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATCCGGTTCA`		+	26551659	26551668	-220	-211
	AtREG561	`ATCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG579	`TCCGGTTC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG480	`CCGGTTCA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TCGCCACGTCAC`		+	26551731	26551742	-148	-137
	AtREG471	`TCGCCACG`	ABA	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`
	AtREG466	`CACGTCAC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`AAACGGCA`		+	26551765	26551772	-114	-107
	AtREG500	`AAACGGCA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 31 - 26551603 AT5G66510.1, AT5G66510.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	31	-	26551603	AT5G66510.1, AT5G66510.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 26551603 AT5G66510.1, AT5G66510.2

TSS clone C clone - 26551598 AT5G66510.1, AT5G66510.2

TSS clone C clone - 26551595 AT5G66510.1, AT5G66510.2

TSS clone A clone - 26551594 AT5G66510.1, AT5G66510.2

TSS clone C clone - 26551593 AT5G66510.1, AT5G66510.2

TSS clone G clone - 26551570 AT5G66510.1, AT5G66510.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	26551603	AT5G66510.1, AT5G66510.2
TSS clone	`C`	clone	-	26551598	AT5G66510.1, AT5G66510.2
TSS clone	`C`	clone	-	26551595	AT5G66510.1, AT5G66510.2
TSS clone	`A`	clone	-	26551594	AT5G66510.1, AT5G66510.2
TSS clone	`C`	clone	-	26551593	AT5G66510.1, AT5G66510.2
TSS clone	`G`	clone	-	26551570	AT5G66510.1, AT5G66510.2

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 CTCTCTCCTCTTCCTCT - 26551577 26551593 AT5G66510.1, AT5G66510.2

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	`CTCTCTCCTCTTCCTCT`	-	26551577	26551593	AT5G66510.1, AT5G66510.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TGAACCGGAT - 26551659 26551668 AT5G66510.1, AT5G66510.2

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

AtREG579 GAACCGGA PPDB Motif AACCG(G/A) PLACE Motif

AtREG561   AACCGGAT PPDB Motif AACCG(G/A) PLACE Motif

REG GTGACGTGGCGA - 26551731 26551742 AT5G66510.1, AT5G66510.2

AtREG466 GTGACGTG     ABA 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

AtREG471     CGTGGCGA ABA PPDB Motif PLACE Motif GCCAC

REG TGCCGTTT - 26551765 26551772 AT5G66510.1, AT5G66510.2

AtREG500 TGCCGTTT PPDB Motif AAACG(C/G) PLACE Motif