PlantPromoterDB promoter information of AT5G20180.2

Summary of Gene (AT5G20180.2)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G20180 TAIR NCBI
Gene model	AT5G20180.2
Description	ribosomal protein L36 family protein; FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation, ribosome biogenesis; LOCATED IN: ribosome, intracellular; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein L36 (InterPro:IPR000473); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:ATCG00760.1); Has 2593 Blast hits to 2593 proteins in 1117 species: Archae - 0; Bacteria - 1934; Metazoa - 39; Fungi - 51; Plants - 452; Viruses - 0; Other Eukaryotes - 117 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 6804662-6805861)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G20180.2 5'->3' (+) Promoter sequence AT5G20160.1 AT5G20160.2 AT5G20160.3 AT5G20165.1 AT5G20165.2 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 AT5G20180.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 15 + 6810948 -364

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	15	+	6810948	-364

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 6810951 -361

TSS clone G clone + 6810965 -347

TSS clone T clone + 6810967 -345

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	6810951	-361
TSS clone	`G`	clone	+	6810965	-347
TSS clone	`T`	clone	+	6810967	-345

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 CTCTTCTTC + 6810966 6810974 -346 -338

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	`CTCTTCTTC`	+	6810966	6810974	-346	-338
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 TTAATGGG + 6810686 6810693 -626 -619

AtREG396 TTAATGGG PPDB Motif GCCCA PLACE Motif TTAATGG

REG GGGTCAAA + 6810844 6810851 -468 -461

AtREG592 GGGTCAAA PPDB Motif PLACE Motif TTGAC, TTGACC

REG TAAAGCCCATTAAAAGCCCAAAA + 6810876 6810898 -436 -414

AtREG365 TAAAGCCC                PPDB Motif GCCCA PLACE Motif

AtREG376 AAAGCCCA   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

AtREG396      CCCATTAA           PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG549           TAAAAGCC      PPDB Motif PLACE Motif

AtREG409            AAAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG407              AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469               AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG529                GCCCAAAA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTAATGGG`		+	6810686	6810693	-626	-619
	AtREG396	`TTAATGGG`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
REG	`GGGTCAAA`		+	6810844	6810851	-468	-461
	AtREG592	`GGGTCAAA`		PPDB Motif		PLACE Motif	`TTGAC, TTGACC`
REG	`TAAAGCCCATTAAAAGCCCAAAA`		+	6810876	6810898	-436	-414
	AtREG365	`TAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA 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
	AtREG396	`CCCATTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
	AtREG549	`TAAAAGCC`		PPDB Motif		PLACE Motif
	AtREG409	`AAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG469	`AGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG529	`GCCCAAAA`		PPDB Motif	`GCCCA`	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

TSS clone A clone - 6805195 AT5G20160.2, AT5G20160.1, AT5G20160.3

TSS clone peak A clone - 6805177 AT5G20160.2, AT5G20160.1, AT5G20160.3

TSS clone G clone - 6805176 AT5G20160.2, AT5G20160.1, AT5G20160.3

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	6805195	AT5G20160.2, AT5G20160.1, AT5G20160.3
TSS clone peak	`A`	clone	-	6805177	AT5G20160.2, AT5G20160.1, AT5G20160.3
TSS clone	`G`	clone	-	6805176	AT5G20160.2, AT5G20160.1, AT5G20160.3

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 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 CCAGGCCCATTAA - 6805235 6805247 AT5G20160.1, AT5G20160.2, AT5G20160.3

AtREG619 CCAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370 CAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   AGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357     GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG396      CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

REG CATGGGCCGAA - 6805260 6805270 AT5G20160.1, AT5G20160.2, AT5G20160.3

AtREG504 CATGGGCC    PPDB Motif GCCCA, CCATGG PLACE Motif GGGCC, TGGGCY

AtREG380 ATGGGCCG   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG393   TGGGCCGA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG427    GGGCCGAA PPDB Motif GCCCA PLACE Motif GGGCC

REG CGGTTAAG - 6805280 6805287 AT5G20160.1, AT5G20160.2, AT5G20160.3

AtREG605 CGGTTAAG PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

REG AAAGTCAA - 6805300 6805307 AT5G20160.1, AT5G20160.2, AT5G20160.3

AtREG632 AAAGTCAA PPDB Motif PLACE Motif TTGAC

REG TTTTGGGCTTTAA - 6805353 6805365 AT5G20160.1, AT5G20160.2, AT5G20160.3

AtREG529 TTTTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG469 TTTGGGCT     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   TTGGGCTT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376    TGGGCTTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG365     GGGCTTTA PPDB Motif GCCCA PLACE Motif

AtREG545      GGCTTTAA PPDB Motif PLACE Motif