PlantPromoterDB promoter information of AT3G18880.1

Summary of Gene (AT3G18880.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G18880 TAIR NCBI
Gene model	AT3G18880.1
Description	ribosomal protein S17 family protein; FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation; LOCATED IN: cytosolic small ribosomal subunit, ribosome, intracellular; EXPRESSED IN: 12 plant structures; EXPRESSED DURING: 4 anthesis, F mature embryo stage, petal differentiation and expansion stage, D bilateral stage, E expanded cotyledon stage; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), Nucleic acid-binding, OB-fold (InterPro:IPR012340), Ribosomal protein S17 (InterPro:IPR000266); BEST Arabidopsis thaliana protein match is: emb1129 (embryo defective 1129); structural constituent of ribosome (TAIR:AT1G49400.1); Has 4907 Blast hits to 4907 proteins in 1461 species: Archae - 81; Bacteria - 2923; Metazoa - 31; Fungi - 32; Plants - 65; Viruses - 0; Other Eukaryotes - 1775 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 6508588-6509787)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G18880.1 5'->3' (+) Promoter sequence AT3G18870.1 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 AT3G18880.1

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 T clone + 6509540 -48

TSS clone peak G clone + 6509578 -10

TSS clone T clone + 6509579 -9

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	6509540	-48
TSS clone peak	`G`	clone	+	6509578	-10
TSS clone	`T`	clone	+	6509579	-9

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 CCGGTTCG + 6509371 6509378 -217 -210

AtREG423 CCGGTTCG PPDB Motif AACCG(G/A) PLACE Motif

REG CGGTTTAG + 6509424 6509431 -164 -157

AtREG511 CGGTTTAG PPDB Motif AACCG(G/A) PLACE Motif

REG GCCGGTTC + 6509438 6509445 -150 -143

AtREG637 GCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

REG AATTGGGCTGA + 6509479 6509489 -109 -99

AtREG418 AATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG402 ATTGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG609    TGGGCTGA PPDB Motif GCCCA PLACE Motif TGGGCY

REG CAAAGCCCATCA + 6509495 6509506 -93 -82

AtREG559 CAAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG376 AAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378   AAGCCCAT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG635     GCCCATCA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CCGGTTCG`		+	6509371	6509378	-217	-210
	AtREG423	`CCGGTTCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`CGGTTTAG`		+	6509424	6509431	-164	-157
	AtREG511	`CGGTTTAG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`GCCGGTTC`		+	6509438	6509445	-150	-143
	AtREG637	`GCCGGTTC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`AATTGGGCTGA`		+	6509479	6509489	-109	-99
	AtREG418	`AATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG402	`ATTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG609	`TGGGCTGA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`CAAAGCCCATCA`		+	6509495	6509506	-93	-82
	AtREG559	`CAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`AAGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG635	`GCCCATCA`		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

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