PlantPromoterDB promoter information of AT4G17390.1

Summary of Gene (AT4G17390.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G17390 TAIR NCBI
Gene model	AT4G17390.1
Description	60S ribosomal protein L15 (RPL15B); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation; LOCATED IN: cytosolic large ribosomal subunit, ribosome, nucleolus, membrane; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein L15e (InterPro:IPR000439), Ribosomal protein L23/L15e, core (InterPro:IPR012678); BEST Arabidopsis thaliana protein match is: 60S ribosomal protein L15 (RPL15A) (TAIR:AT4G16720.1); Has 971 Blast hits to 970 proteins in 319 species: Archae - 217; Bacteria - 0; Metazoa - 330; Fungi - 103; Plants - 125; Viruses - 0; Other Eukaryotes - 196 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 9716545-9715346)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G17390.1 5'->3' (-) Promoter sequence AT4G17410.1 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 AT4G17390.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 73 - 9715568 -23

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	73	-	9715568	-23

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 9715612 -67

TSS clone A clone - 9715571 -26

TSS clone G clone - 9715570 -25

TSS clone T clone - 9715569 -24

TSS clone G clone - 9715568 -23

TSS clone A clone - 9715567 -22

TSS clone C clone - 9715566 -21

TSS clone C clone - 9715563 -18

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	9715612	-67
TSS clone	`A`	clone	-	9715571	-26
TSS clone	`G`	clone	-	9715570	-25
TSS clone	`T`	clone	-	9715569	-24
TSS clone	`G`	clone	-	9715568	-23
TSS clone	`A`	clone	-	9715567	-22
TSS clone	`C`	clone	-	9715566	-21
TSS clone	`C`	clone	-	9715563	-18

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 AAAAGGCCCAATAAGGGC - 9715645 9715662 -100 -117

AtREG459 AAAAGGCC           PPDB Motif PLACE Motif

AtREG359 AAAGGCCC          PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    AGGCCCAA        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352     GGCCCAAT       PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355      GCCCAATA      PPDB Motif GCCCA PLACE Motif

AtREG417       CCCAATAA     PPDB Motif GCCCA PLACE Motif

AtREG611        CCAATAAG    PPDB Motif PLACE Motif

AtREG616           ATAAGGGC PPDB Motif PLACE Motif

REG AAGGCCCAATA - 9715678 9715688 -133 -143

AtREG353 AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356 AGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352   GGCCCAAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355    GCCCAATA PPDB Motif GCCCA PLACE Motif

REG ATAATGGGCCATA - 9715721 9715733 -176 -188

AtREG546 ATAATGGG      PPDB Motif PLACE Motif

AtREG357 TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490    ATGGGCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437     TGGGCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG479      GGGCCATA PPDB Motif GCCCA PLACE Motif GGGCC

REG GCGTTTTG - 9715753 9715760 -208 -215

AtREG585 GCGTTTTG PPDB Motif AAACG(C/G) PLACE Motif CAAAACGC

REG TCTAGGGT - 9715821 9715828 -276 -283

AtREG658 TCTAGGGT PPDB Motif ACCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAAAGGCCCAATAAGGGC`		-	9715645	9715662	-100	-117
	AtREG459	`AAAAGGCC`		PPDB Motif		PLACE Motif
	AtREG359	`AAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`AGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG417	`CCCAATAA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG611	`CCAATAAG`		PPDB Motif		PLACE Motif
	AtREG616	`ATAAGGGC`		PPDB Motif		PLACE Motif
REG	`AAGGCCCAATA`		-	9715678	9715688	-133	-143
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`AGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`ATAATGGGCCATA`		-	9715721	9715733	-176	-188
	AtREG546	`ATAATGGG`		PPDB Motif		PLACE Motif
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`ATGGGCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG437	`TGGGCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG479	`GGGCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`GCGTTTTG`		-	9715753	9715760	-208	-215
	AtREG585	`GCGTTTTG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif	`CAAAACGC`
REG	`TCTAGGGT`		-	9715821	9715828	-276	-283
	AtREG658	`TCTAGGGT`		PPDB Motif	`ACCCT`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 4 + 9715774 AT4G17410.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	4	+	9715774	AT4G17410.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 9715774 AT4G17410.1

TSS clone A clone + 9715796 AT4G17410.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	9715774	AT4G17410.1
TSS clone	`A`	clone	+	9715796	AT4G17410.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TTATAAATT + 9715730 9715738 AT4G17410.1

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	`TTATAAATT`	+	9715730	9715738	AT4G17410.1
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 GAAACGACA + 9715502 9715510 AT4G17410.1

AtREG576 GAAACGAC PPDB Motif PLACE Motif

AtREG569 AAACGACA PPDB Motif PLACE Motif

REG GCCCTTATTGGGCCTTTT + 9715645 9715662 AT4G17410.1

AtREG616 GCCCTTAT           PPDB Motif PLACE Motif

AtREG611    CTTATTGG        PPDB Motif PLACE Motif

AtREG417     TTATTGGG       PPDB Motif GCCCA PLACE Motif

AtREG355      TATTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG352       ATTGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356        TTGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353         TGGGCCTT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG359          GGGCCTTT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG459           GGCCTTTT PPDB Motif PLACE Motif

REG TATTGGGCCTT + 9715678 9715688 AT4G17410.1

AtREG355 TATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG352 ATTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   TTGGGCCT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TATGGCCCATTAT + 9715721 9715733 AT4G17410.1

AtREG479 TATGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG437 ATGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490   TGGCCCAT    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