PlantPromoterDB promoter information of AT3G04920.1

Summary of Gene (AT3G04920.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G04920 TAIR NCBI
Gene model	AT3G04920.1
Description	40S ribosomal protein S24 (RPS24A); FUNCTIONS IN: structural constituent of ribosome, nucleotide binding; INVOLVED IN: translation, ribosome biogenesis; LOCATED IN: in 7 components; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein S24e (InterPro:IPR001976), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), Ribosomal S24e conserved site (InterPro:IPR018098); BEST Arabidopsis thaliana protein match is: 40S ribosomal protein S24 (RPS24B) (TAIR:AT5G28060.1); Has 643 Blast hits to 643 proteins in 254 species: Archae - 56; Bacteria - 0; Metazoa - 305; Fungi - 103; Plants - 74; Viruses - 0; Other Eukaryotes - 105 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 1359989-1361188)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G04920.1 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 AT3G04920.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 33 + 1360926 -63

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	33	+	1360926	-63

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 1360912 -77

TSS clone T clone + 1360914 -75

TSS clone C clone + 1360917 -72

TSS clone C clone + 1360918 -71

TSS clone A clone + 1360922 -67

TSS clone C clone + 1360923 -66

TSS clone G clone + 1360926 -63

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	1360912	-77
TSS clone	`T`	clone	+	1360914	-75
TSS clone	`C`	clone	+	1360917	-72
TSS clone	`C`	clone	+	1360918	-71
TSS clone	`A`	clone	+	1360922	-67
TSS clone	`C`	clone	+	1360923	-66
TSS clone	`G`	clone	+	1360926	-63

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 ATATAAAAG + 1360882 1360890 -107 -99

Y Patch TCTCTTTCCT + 1360910 1360919 -79 -70

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	`ATATAAAAG`	+	1360882	1360890	-107	-99
Y Patch	`TCTCTTTCCT`	+	1360910	1360919	-79	-70
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 CGTGGCGT + 1360660 1360667 -329 -322

AtREG508 CGTGGCGT PPDB Motif PLACE Motif GCCAC

REG TTTAGGCCCAGTGGGCTTC + 1360732 1360750 -257 -239

AtREG430 TTTAGGCC            PPDB Motif PLACE Motif

AtREG360 TTAGGCCC           PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358   TAGGCCCA          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410    AGGCCCAG         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG384     GGCCCAGT        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG510          AGTGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG518           GTGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG476            TGGGCTTC PPDB Motif GCCCA PLACE Motif TGGGCY

REG TAAGCCCAAAT + 1360814 1360824 -175 -165

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 TGAGGCCCATA + 1360832 1360842 -157 -147

AtREG587 TGAGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG447 GAGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   AGGCCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364    GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CGTGGCGT`		+	1360660	1360667	-329	-322
	AtREG508	`CGTGGCGT`		PPDB Motif		PLACE Motif	`GCCAC`
REG	`TTTAGGCCCAGTGGGCTTC`		+	1360732	1360750	-257	-239
	AtREG430	`TTTAGGCC`		PPDB Motif		PLACE Motif
	AtREG360	`TTAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG410	`AGGCCCAG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG384	`GGCCCAGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG510	`AGTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG518	`GTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG476	`TGGGCTTC`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TAAGCCCAAAT`		+	1360814	1360824	-175	-165
	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	`TGAGGCCCATA`		+	1360832	1360842	-157	-147
	AtREG587	`TGAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG447	`GAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG364	`GGCCCATA`		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