PlantPromoterDB promoter information of AT5G02450

Summary of Gene (AT5G02450)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G02450 TAIR NCBI
Gene model	AT5G02450
Description	60S ribosomal protein L36 (RPL36C); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation; LOCATED IN: cytosolic large ribosomal subunit, ribosome, plasma membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein L36e (InterPro:IPR000509); BEST Arabidopsis thaliana protein match is: 60S ribosomal protein L36 (RPL36B) (TAIR:AT3G53740.4); Has 585 Blast hits to 585 proteins in 196 species: Archae - 0; Bacteria - 0; Metazoa - 295; Fungi - 95; Plants - 95; Viruses - 0; Other Eukaryotes - 100 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 532501-533700)

`Genome position from initiation codon` `AT5G02440.1 AT5G02450.1 TSS from cDNA TSS information AT5G02450 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 AT5G02450

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 10 + 533159 -342

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	10	+	533159	-342

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone C clone + 533152 -349

TSS clone T clone + 533153 -348

TSS clone C clone + 533154 -347

TSS clone T clone + 533155 -346

TSS clone G clone + 533159 -342

TSS clone A clone + 533160 -341

TSS clone C clone + 533161 -340

TSS clone G clone + 533166 -335

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	+	533152	-349
TSS clone	`T`	clone	+	533153	-348
TSS clone	`C`	clone	+	533154	-347
TSS clone	`T`	clone	+	533155	-346
TSS clone	`G`	clone	+	533159	-342
TSS clone	`A`	clone	+	533160	-341
TSS clone	`C`	clone	+	533161	-340
TSS clone	`G`	clone	+	533166	-335

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 ACTATAAAAT + 533118 533127 -383 -374

Y Patch TTTCTCTC + 533132 533139 -369 -362

Y Patch TCTCTTTC + 533151 533158 -350 -343

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	`ACTATAAAAT`	+	533118	533127	-383	-374
Y Patch	`TTTCTCTC`	+	533132	533139	-369	-362
Y Patch	`TCTCTTTC`	+	533151	533158	-350	-343
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 TTATTGGGCCTC + 532923 532934 -578 -567

AtREG417 TTATTGGG     PPDB Motif GCCCA PLACE Motif

AtREG355 TATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    TTGGGCCT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG447     TGGGCCTC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG ATAAGGCCCAAAA + 532962 532974 -539 -527

AtREG425 ATAAGGCC      PPDB Motif AACCG(G/A) PLACE Motif

AtREG351 TAAGGCCC     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

REG TTAAAGCCCA + 532993 533002 -508 -499

AtREG545 TTAAAGCC   PPDB Motif PLACE Motif

AtREG365 TAAAGCCC PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA PPDB Motif GCCCA PLACE Motif TGGGCY

REG GTTTGGGCCCAACA + 533019 533032 -482 -469

AtREG474 GTTTGGGC       PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG422    TGGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392   TTGGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG449      GGCCCAAC PPDB Motif GCCCA, CCAACGG PLACE Motif GGGCC, TGGGCY

AtREG543       GCCCAACA PPDB Motif GCCCA PLACE Motif CAACA

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTATTGGGCCTC`		+	532923	532934	-578	-567
	AtREG417	`TTATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`TTGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG447	`TGGGCCTC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`ATAAGGCCCAAAA`		+	532962	532974	-539	-527
	AtREG425	`ATAAGGCC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG351	`TAAGGCCC`		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
REG	`TTAAAGCCCA`		+	532993	533002	-508	-499
	AtREG545	`TTAAAGCC`		PPDB Motif		PLACE Motif
	AtREG365	`TAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`GTTTGGGCCCAACA`		+	533019	533032	-482	-469
	AtREG474	`GTTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG373	`TTTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG422	`TGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`TTGGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG449	`GGCCCAAC`		PPDB Motif	`GCCCA, CCAACGG`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG543	`GCCCAACA`		PPDB Motif	`GCCCA`	PLACE Motif	`CAACA`

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