PlantPromoterDB promoter information of AT3G05560.2

Summary of Gene (AT3G05560.2)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G05560 TAIR NCBI
Gene model	AT3G05560.2
Description	60S ribosomal protein L22-2 (RPL22B); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation; LOCATED IN: cytosolic ribosome, cytosolic large ribosomal subunit, ribosome, nucleolus, plasma membrane; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein L22e (InterPro:IPR002671); BEST Arabidopsis thaliana protein match is: 60S ribosomal protein L22 (RPL22C) (TAIR:AT5G27770.1); Has 492 Blast hits to 492 proteins in 173 species: Archae - 0; Bacteria - 0; Metazoa - 251; Fungi - 89; Plants - 73; Viruses - 0; Other Eukaryotes - 79 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 1620441-1621640)

`Genome position from initiation codon` `AT3G05590.1 TSS from cDNA TSS information AT3G05560.2 5'->3' (+) Promoter sequence 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 AT3G05560.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 51 + 1614200 -441

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	51	+	1614200	-441

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 CAATTGGG + 1614083 1614090 -558 -551

AtREG647 CAATTGGG PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CAATTGGG`		+	1614083	1614090	-558	-551
	AtREG647	`CAATTGGG`		PPDB Motif		PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 136 + 1621472 AT3G05590.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	136	+	1621472	AT3G05590.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 1621457 AT3G05590.1

TSS clone T clone + 1621471 AT3G05590.1

TSS clone A clone + 1621472 AT3G05590.1

TSS clone G clone + 1621473 AT3G05590.1

TSS clone A clone + 1621474 AT3G05590.1

TSS clone A clone + 1621475 AT3G05590.1

TSS clone G clone + 1621476 AT3G05590.1

TSS clone T clone + 1621478 AT3G05590.1

TSS clone G clone + 1621480 AT3G05590.1

TSS clone C clone + 1621482 AT3G05590.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	1621457	AT3G05590.1
TSS clone	`T`	clone	+	1621471	AT3G05590.1
TSS clone	`A`	clone	+	1621472	AT3G05590.1
TSS clone	`G`	clone	+	1621473	AT3G05590.1
TSS clone	`A`	clone	+	1621474	AT3G05590.1
TSS clone	`A`	clone	+	1621475	AT3G05590.1
TSS clone	`G`	clone	+	1621476	AT3G05590.1
TSS clone	`T`	clone	+	1621478	AT3G05590.1
TSS clone	`G`	clone	+	1621480	AT3G05590.1
TSS clone	`C`	clone	+	1621482	AT3G05590.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TATAAAAA + 1621441 1621448 AT3G05590.1

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	`TATAAAAA`	+	1621441	1621448	AT3G05590.1
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 TAAATGGGCCAAT + 1621308 1621320 AT3G05590.1

AtREG443 TAAATGGG      PPDB Motif GCCCA PLACE Motif

AtREG386 AAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490    ATGGGCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG484     TGGGCCAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG446      GGGCCAAT CK PPDB Motif GCCCA PLACE Motif GGGCC

REG CAAGGCCCATCT + 1621363 1621374 AT3G05590.1

AtREG398 CAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353 AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG403    GGCCCATC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG572     GCCCATCT PPDB Motif GCCCA PLACE Motif

REG CTAAGCCCATTT + 1621393 1621404 AT3G05590.1

AtREG634 CTAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG426 TAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378   AAGCCCAT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372    AGCCCATT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG386     GCCCATTT PPDB Motif GCCCA PLACE Motif