PlantPromoterDB promoter information of AT3G49910.1

Summary of Gene (AT3G49910.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G49910 TAIR NCBI
Gene model	AT3G49910.1
Description	60S ribosomal protein L26 (RPL26A); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: response to cold, translation; LOCATED IN: in 8 components; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Translation protein SH3-like (InterPro:IPR008991), Ribosomal protein L26, eukaryotic/archaeal (InterPro:IPR005756), Ribosomal protein L24, SH3-like (InterPro:IPR014723), KOW (InterPro:IPR005824), Ribosomal protein L24/L26, conserved site (InterPro:IPR005825); BEST Arabidopsis thaliana protein match is: 60S ribosomal protein L26 (RPL26B) (TAIR:AT5G67510.1); Has 870 Blast hits to 870 proteins in 315 species: Archae - 232; Bacteria - 6; Metazoa - 311; Fungi - 91; Plants - 68; Viruses - 0; Other Eukaryotes - 162 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 18503311-18504510)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G49910.1 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 AT3G49910.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 + 18504259 -52

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	+	18504259	-52

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 18504257 -54

TSS clone C clone + 18504258 -53

TSS clone A clone + 18504259 -52

TSS clone T clone + 18504260 -51

TSS clone G clone + 18504284 -27

TSS clone C clone + 18504299 -12

TSS clone C clone + 18504300 -11

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	18504257	-54
TSS clone	`C`	clone	+	18504258	-53
TSS clone	`A`	clone	+	18504259	-52
TSS clone	`T`	clone	+	18504260	-51
TSS clone	`G`	clone	+	18504284	-27
TSS clone	`C`	clone	+	18504299	-12
TSS clone	`C`	clone	+	18504300	-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 ACTATATAAC + 18504221 18504230 -90 -81

Y Patch CTCTTCCTC + 18504250 18504258 -61 -53

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	`ACTATATAAC`	+	18504221	18504230	-90	-81
Y Patch	`CTCTTCCTC`	+	18504250	18504258	-61	-53
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 GTCGTTTT + 18504029 18504036 -282 -275

AtREG520 GTCGTTTT PPDB Motif PLACE Motif

REG AGAGGCCCATTAT + 18504116 18504128 -195 -183

AtREG411 AGAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG447 GAGGCCCA     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

AtREG357     GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG546      CCCATTAT PPDB Motif PLACE Motif

REG ACAGGCCCAGCCCATTC + 18504155 18504171 -156 -140

AtREG433 ACAGGCCC          PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370 CAGGCCCA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410   AGGCCCAG        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG454     GCCCAGCC      PPDB Motif GCCCA PLACE Motif

AtREG372         AGCCCATT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG643          GCCCATTC PPDB Motif GCCCA PLACE Motif

REG CAAAGCCCTA + 18504176 18504185 -135 -126

AtREG559 CAAAGCCC   PPDB Motif GCCCA PLACE Motif

AtREG651   AAGCCCTA PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GTCGTTTT`		+	18504029	18504036	-282	-275
	AtREG520	`GTCGTTTT`		PPDB Motif		PLACE Motif
REG	`AGAGGCCCATTAT`		+	18504116	18504128	-195	-183
	AtREG411	`AGAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG447	`GAGGCCCA`		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`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG546	`CCCATTAT`		PPDB Motif		PLACE Motif
REG	`ACAGGCCCAGCCCATTC`		+	18504155	18504171	-156	-140
	AtREG433	`ACAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG370	`CAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG410	`AGGCCCAG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG454	`GCCCAGCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG643	`GCCCATTC`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CAAAGCCCTA`		+	18504176	18504185	-135	-126
	AtREG559	`CAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG651	`AAGCCCTA`		PPDB Motif		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