PlantPromoterDB promoter information of AT1G15930.1

Summary of Gene (AT1G15930.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G15930 TAIR NCBI
Gene model	AT1G15930.1
Description	40S ribosomal protein S12 (RPS12A); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: response to cadmium ion, response to salt stress, translation; LOCATED IN: cytosolic small ribosomal subunit, cytosolic ribosome; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein S12e (InterPro:IPR000530), Ribosomal protein L7Ae/L30e/S12e/Gadd45 (InterPro:IPR004038); BEST Arabidopsis thaliana protein match is: 40S ribosomal protein S12 (RPS12C) (TAIR:AT2G32060.3); Has 755 Blast hits to 755 proteins in 241 species: Archae - 164; Bacteria - 0; Metazoa - 257; Fungi - 123; Plants - 63; Viruses - 0; Other Eukaryotes - 148 (source: NCBI BLink).

#

Overview

Focused view (chromosome 1: 5470702-5471901)

`Genome position from initiation codon` `AT1G15920.1 AT1G15920.2 AT1G15930.2 TSS from cDNA TSS information AT1G15930.1 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 AT1G15930.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 34 + 5471439 -263

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	34	+	5471439	-263

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 5471406 -296

TSS clone C clone + 5471437 -265

TSS clone C clone + 5471438 -264

TSS clone G clone + 5471439 -263

TSS clone C clone + 5471440 -262

TSS clone T clone + 5471441 -261

TSS clone C clone + 5471443 -259

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	5471406	-296
TSS clone	`C`	clone	+	5471437	-265
TSS clone	`C`	clone	+	5471438	-264
TSS clone	`G`	clone	+	5471439	-263
TSS clone	`C`	clone	+	5471440	-262
TSS clone	`T`	clone	+	5471441	-261
TSS clone	`C`	clone	+	5471443	-259

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 TCCATATAAATT + 5471400 5471411 -302 -291

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	`TCCATATAAATT`	+	5471400	5471411	-302	-291
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 ATCCACGT + 5471202 5471209 -500 -493

AtREG547 ATCCACGT ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG ACGTCGTC + 5471291 5471298 -411 -404

AtREG526 ACGTCGTC PPDB Motif ACGT PLACE Motif ACGT

REG AGCCCAATTAATAGGCCCATTTAAGCCCAAAT + 5471300 5471331 -402 -371

AtREG402 AGCCCAAT                         PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG418 GCCCAATT                        PPDB Motif GCCCA PLACE Motif

AtREG600   CCCAATTA                       PPDB Motif GCCCA PLACE Motif

AtREG424          AATAGGCC                PPDB Motif PLACE Motif

AtREG362           ATAGGCCC               PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358            TAGGCCCA              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

AtREG386               GCCCATTT           PPDB Motif GCCCA PLACE Motif

AtREG443                CCCATTTA          PPDB Motif GCCCA PLACE Motif

AtREG426                      TAAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407                       AAGCCCAA   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469                        AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG421                         GCCCAAAT PPDB Motif GCCCA PLACE Motif

REG CCGTTAAA + 5471364 5471371 -338 -331

AtREG610 CCGTTAAA PPDB Motif PLACE Motif YAACKG, CNGTTR

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATCCACGT`		+	5471202	5471209	-500	-493
	AtREG547	`ATCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`ACGTCGTC`		+	5471291	5471298	-411	-404
	AtREG526	`ACGTCGTC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
REG	`AGCCCAATTAATAGGCCCATTTAAGCCCAAAT`		+	5471300	5471331	-402	-371
	AtREG402	`AGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG418	`GCCCAATT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG600	`CCCAATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG424	`AATAGGCC`		PPDB Motif		PLACE Motif
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		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`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG443	`CCCATTTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG469	`AGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG421	`GCCCAAAT`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CCGTTAAA`		+	5471364	5471371	-338	-331
	AtREG610	`CCGTTAAA`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`

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