PlantPromoterDB promoter information of AT5G27850

Summary of Gene (AT5G27850)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G27850 TAIR NCBI
Gene model	AT5G27850
Description	60S ribosomal protein L18 (RPL18C); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation; LOCATED IN: cytosolic ribosome, cytosolic large ribosomal subunit, vacuole, large ribosomal subunit, membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein L18e (InterPro:IPR000039); BEST Arabidopsis thaliana protein match is: RPL18 (RIBOSOMAL PROTEIN L18); structural constituent of ribosome (TAIR:AT3G05590.1); Has 601 Blast hits to 601 proteins in 237 species: Archae - 28; Bacteria - 0; Metazoa - 279; Fungi - 98; Plants - 80; Viruses - 0; Other Eukaryotes - 116 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 9861219-9862418)

`Genome position from initiation codon` `AT5G27830.1 AT5G27830.2 AT5G27830.3 TSS from cDNA TSS information AT5G27850 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 AT5G27850

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

TSS clone C clone + 9873154 -15

TSS clone T clone + 9873155 -14

TSS clone peak C clone + 9873156 -13

TSS clone G clone + 9873157 -12

TSS clone C clone + 9873158 -11

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	+	9873154	-15
TSS clone	`T`	clone	+	9873155	-14
TSS clone peak	`C`	clone	+	9873156	-13
TSS clone	`G`	clone	+	9873157	-12
TSS clone	`C`	clone	+	9873158	-11

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 None None None

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	None	None	None

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 4 + 9861262 AT5G27830.1, AT5G27830.2, AT5G27830.3

TSS peak G 4 + 9861283 AT5G27830.1, AT5G27830.2, AT5G27830.3

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	4	+	9861262	AT5G27830.1, AT5G27830.2, AT5G27830.3
TSS peak	`G`	4	+	9861283	AT5G27830.1, AT5G27830.2, AT5G27830.3

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 9861298 AT5G27830.1, AT5G27830.2, AT5G27830.3

TSS clone T clone + 9861305 AT5G27830.1, AT5G27830.2, AT5G27830.3

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	9861298	AT5G27830.1, AT5G27830.2, AT5G27830.3
TSS clone	`T`	clone	+	9861305	AT5G27830.1, AT5G27830.2, AT5G27830.3

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 TTCTTCCTCTC + 9861238 9861248 AT5G27830.1, AT5G27830.2, AT5G27830.3

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	`TTCTTCCTCTC`	+	9861238	9861248	AT5G27830.1, AT5G27830.2, AT5G27830.3
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TCGGGTCGACCCG + 9861217 9861229 AT5G27830.1, AT5G27830.2, AT5G27830.3

AtREG383 TCGGGTCG PPDB Motif PLACE Motif

AtREG539 CGGGTCGACCCG PPDB Motif PLACE Motif