PlantPromoterDB promoter information of AT4G36810.1

Summary of Gene (AT4G36810.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G36810 TAIR NCBI
Gene model	AT4G36810.1
Description	Encodes a protein with geranylgeranyl pyrophosphate synthase activity involved in isoprenoid biosynthesis. The enzyme appears to be targeted to the chloroplast in epidermal cells and guard cells of leaves, and in etioplasts in roots.

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Overview

Focused view (chromosome 4: 17342513-17343712)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G36810.1 5'->3' (+) Promoter sequence AT4G36800.1 AT4G36800.2 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 AT4G36810.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 + 17343496 -17

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	+	17343496	-17

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone + 17343347 -166

TSS clone T clone + 17343358 -155

TSS clone A clone + 17343407 -106

TSS clone A clone + 17343444 -69

TSS clone A clone + 17343488 -25

TSS clone A clone + 17343496 -17

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	+	17343347	-166
TSS clone	`T`	clone	+	17343358	-155
TSS clone	`A`	clone	+	17343407	-106
TSS clone	`A`	clone	+	17343444	-69
TSS clone	`A`	clone	+	17343488	-25
TSS clone	`A`	clone	+	17343496	-17

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 AATATAAAAA + 17343466 17343475 -47 -38

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	`AATATAAAAA`	+	17343466	17343475	-47	-38
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 CAAGGCCCATTC + 17343344 17343355 -169 -158

AtREG398 CAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353 AAGGCCCA    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

AtREG643     GCCCATTC PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CAAGGCCCATTC`		+	17343344	17343355	-169	-158
	AtREG398	`CAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		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`
	AtREG643	`GCCCATTC`		PPDB Motif	`GCCCA`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 23 - 17342732 AT4G36800.1, AT4G36800.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	23	-	17342732	AT4G36800.1, AT4G36800.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone - 17342747 AT4G36800.1, AT4G36800.2

TSS clone A clone - 17342735 AT4G36800.1, AT4G36800.2

TSS clone G clone - 17342732 AT4G36800.1, AT4G36800.2

TSS clone T clone - 17342710 AT4G36800.1, AT4G36800.2

TSS clone T clone - 17342706 AT4G36800.1, AT4G36800.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	-	17342747	AT4G36800.1, AT4G36800.2
TSS clone	`A`	clone	-	17342735	AT4G36800.1, AT4G36800.2
TSS clone	`G`	clone	-	17342732	AT4G36800.1, AT4G36800.2
TSS clone	`T`	clone	-	17342710	AT4G36800.1, AT4G36800.2
TSS clone	`T`	clone	-	17342706	AT4G36800.1, AT4G36800.2

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 AAATGGGCCTAACGGGCTTTAATGGGCCAA - 17342821 17342850 AT4G36800.1, AT4G36800.2

AtREG386 AAATGGGC                       PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC           AATGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT                     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358    TGGGCCTA                    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG360     GGGCCTAA                   PPDB Motif GCCCA PLACE Motif GGGCC

AtREG535      GGCCTAAC                  PPDB Motif PLACE Motif

AtREG399          TAACGGGC              PPDB Motif ACGGGC PLACE Motif YAACKG, CNGTTR

AtREG365              GGGCTTTA          PPDB Motif GCCCA PLACE Motif

AtREG545               GGCTTTAA         PPDB Motif PLACE Motif

AtREG396                   TTAATGGG     PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357                    TAATGGGC    PPDB Motif GCCCA PLACE Motif

AtREG490                      ATGGGCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG484                       TGGGCCAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY