PlantPromoterDB promoter information of AT5G14320.1

Summary of Gene (AT5G14320.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G14320 TAIR NCBI
Gene model	AT5G14320.1
Description	30S ribosomal protein S13, chloroplast (CS13); FUNCTIONS IN: structural constituent of ribosome, RNA binding, nucleic acid binding; INVOLVED IN: translation; LOCATED IN: small ribosomal subunit, chloroplast, chloroplast envelope; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein S13-like, H2TH (InterPro:IPR010979), Ribosomal protein S13, conserved site (InterPro:IPR018269), Ribosomal protein S13 (InterPro:IPR001892); BEST Arabidopsis thaliana protein match is: 30S ribosomal protein S13, chloroplast, putative (TAIR:AT1G77750.1); Has 5735 Blast hits to 5735 proteins in 1744 species: Archae - 113; Bacteria - 2978; Metazoa - 171; Fungi - 134; Plants - 251; Viruses - 0; Other Eukaryotes - 2088 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 4619772-4618573)

`Genome position from initiation codon` `AT5G14320.2 TSS from cDNA TSS information AT5G14320.1 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 AT5G14320.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 38 - 4618889 -117

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	38	-	4618889	-117

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 4618912 -140

TSS clone A clone - 4618909 -137

TSS clone A clone - 4618888 -116

TSS clone A clone - 4618884 -112

TSS clone A clone - 4618883 -111

TSS clone G clone - 4618880 -108

TSS clone T clone - 4618879 -107

TSS clone G clone - 4618875 -103

TSS clone C clone - 4618862 -90

TSS clone T clone - 4618857 -85

TSS clone T clone - 4618826 -54

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	4618912	-140
TSS clone	`A`	clone	-	4618909	-137
TSS clone	`A`	clone	-	4618888	-116
TSS clone	`A`	clone	-	4618884	-112
TSS clone	`A`	clone	-	4618883	-111
TSS clone	`G`	clone	-	4618880	-108
TSS clone	`T`	clone	-	4618879	-107
TSS clone	`G`	clone	-	4618875	-103
TSS clone	`C`	clone	-	4618862	-90
TSS clone	`T`	clone	-	4618857	-85
TSS clone	`T`	clone	-	4618826	-54

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 CAAAGCCCAACA - 4618955 4618966 -183 -194

AtREG559 CAAAGCCC     PPDB Motif GCCCA PLACE Motif

AtREG376 AAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407   AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG574    AGCCCAAC PPDB Motif GCCCA, CCAACGG PLACE Motif TGGGCY

AtREG543     GCCCAACA PPDB Motif GCCCA PLACE Motif CAACA

REG AGTTGGGCCGT - 4619000 4619010 -228 -238

AtREG607 AGTTGGGC    PPDB Motif GCCCA PLACE Motif

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

AtREG414   TTGGGCCG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG368    TGGGCCGT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CAAAGCCCAACA`		-	4618955	4618966	-183	-194
	AtREG559	`CAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG574	`AGCCCAAC`		PPDB Motif	`GCCCA, CCAACGG`	PLACE Motif	`TGGGCY`
	AtREG543	`GCCCAACA`		PPDB Motif	`GCCCA`	PLACE Motif	`CAACA`
REG	`AGTTGGGCCGT`		-	4619000	4619010	-228	-238
	AtREG607	`AGTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG449	`GTTGGGCC`		PPDB Motif	`GCCCA, CCAACGG`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG414	`TTGGGCCG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG368	`TGGGCCGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`

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