PlantPromoterDB promoter information of AT5G59850.1

Summary of Gene (AT5G59850.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G59850 TAIR NCBI
Gene model	AT5G59850.1
Description	40S ribosomal protein S15A (RPS15aF); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation; LOCATED IN: cytosolic small ribosomal subunit, cell wall, membrane; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein S8 (InterPro:IPR000630); BEST Arabidopsis thaliana protein match is: RPS15A (ribosomal protein s15a); structural constituent of ribosome (TAIR:AT1G07770.2); Has 2190 Blast hits to 2190 proteins in 758 species: Archae - 184; Bacteria - 927; Metazoa - 327; Fungi - 130; Plants - 162; Viruses - 0; Other Eukaryotes - 460 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 24114084-24112885)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G59850.1 5'->3' (-) Promoter sequence AT5G59860.1 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 AT5G59850.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 33 - 24113605 -521

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	33	-	24113605	-521

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 24113610 -526

TSS clone G clone - 24113605 -521

TSS clone T clone - 24113604 -520

TSS clone G clone - 24113598 -514

TSS clone T clone - 24113571 -487

TSS clone C clone - 24113570 -486

TSS clone C clone - 24113564 -480

TSS clone G clone - 24113094 -10

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	24113610	-526
TSS clone	`G`	clone	-	24113605	-521
TSS clone	`T`	clone	-	24113604	-520
TSS clone	`G`	clone	-	24113598	-514
TSS clone	`T`	clone	-	24113571	-487
TSS clone	`C`	clone	-	24113570	-486
TSS clone	`C`	clone	-	24113564	-480
TSS clone	`G`	clone	-	24113094	-10

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 AAAGGCCCAAAATAAAGCCCATTAT - 24113680 24113704 -596 -620

AtREG359 AAAGGCCC                  PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353 AAGGCCCA                 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

AtREG529     GCCCAAAA              PPDB Motif GCCCA PLACE Motif

AtREG601            ATAAAGCC       PPDB Motif PLACE Motif

AtREG365             TAAAGCCC      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

AtREG546                  CCCATTAT PPDB Motif PLACE Motif

REG TAAACGACG - 24113756 24113764 -672 -680

AtREG565 TAAACGAC PPDB Motif PLACE Motif

AtREG415 AAACGACG PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAAGGCCCAAAATAAAGCCCATTAT`		-	24113680	24113704	-596	-620
	AtREG359	`AAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		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`
	AtREG529	`GCCCAAAA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG601	`ATAAAGCC`		PPDB Motif		PLACE Motif
	AtREG365	`TAAAGCCC`		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
	AtREG546	`CCCATTAT`		PPDB Motif		PLACE Motif
REG	`TAAACGACG`		-	24113756	24113764	-672	-680
	AtREG565	`TAAACGAC`		PPDB Motif		PLACE Motif
	AtREG415	`AAACGACG`		PPDB Motif		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 None None None