PlantPromoterDB promoter information of AT4G40042.1

Summary of Gene (AT4G40042.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G40042 TAIR NCBI
Gene model	AT4G40042.1
Description	peptidase; FUNCTIONS IN: peptidase activity; INVOLVED IN: signal peptide processing; LOCATED IN: endomembrane system, integral to membrane, signal peptidase complex; CONTAINS InterPro DOMAIN/s: Microsomal signal peptidase 12 kDa subunit (InterPro:IPR009542); BEST Arabidopsis thaliana protein match is: peptidase (TAIR:AT2G22425.2); Has 218 Blast hits to 218 proteins in 104 species: Archae - 0; Bacteria - 0; Metazoa - 103; Fungi - 56; Plants - 39; Viruses - 0; Other Eukaryotes - 20 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 18558289-18559488)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G40042.1 5'->3' (+) Promoter sequence AT4G40040.1 AT4G40040.2 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 AT4G40042.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 2 + 18559164 -125

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	2	+	18559164	-125

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 18559104 -185

TSS clone G clone + 18559105 -184

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	18559104	-185
TSS clone	`G`	clone	+	18559105	-184

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 CGTCTTCTTCC + 18559130 18559140 -159 -149

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	`CGTCTTCTTCC`	+	18559130	18559140	-159	-149
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 CAACGGTC + 18558872 18558879 -417 -410

AtREG553 CAACGGTC Auxin PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

REG ATAAACCGT + 18558969 18558977 -320 -312

AtREG598 ATAAACCG PPDB Motif AACCG(G/A) PLACE Motif

AtREG652 TAAACCGT PPDB Motif PLACE Motif

REG TTTAGGCC + 18558988 18558995 -301 -294

AtREG430 TTTAGGCC PPDB Motif PLACE Motif

REG TTAATGGGCTCA + 18559006 18559017 -283 -272

AtREG396 TTAATGGG     PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357 TAATGGGC    PPDB Motif GCCCA PLACE Motif

AtREG372   AATGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG485     TGGGCTCA PPDB Motif GCCCA PLACE Motif TGGGCY

REG ATAAGGCCCATTG + 18559021 18559033 -268 -256

AtREG425 ATAAGGCC      PPDB Motif AACCG(G/A) PLACE Motif

AtREG351 TAAGGCCC     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

AtREG551      GCCCATTG PPDB Motif GCCCA PLACE Motif

REG TTTCCGGTTCA + 18559094 18559104 -195 -185

AtREG644 TTTCCGGT    PPDB Motif AACCG(G/A) PLACE Motif

AtREG534 TTCCGGTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG579   TCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

AtREG480    CCGGTTCA PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CAACGGTC`		+	18558872	18558879	-417	-410
	AtREG553	`CAACGGTC`	Auxin	PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`
REG	`ATAAACCGT`		+	18558969	18558977	-320	-312
	AtREG598	`ATAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG652	`TAAACCGT`		PPDB Motif		PLACE Motif
REG	`TTTAGGCC`		+	18558988	18558995	-301	-294
	AtREG430	`TTTAGGCC`		PPDB Motif		PLACE Motif
REG	`TTAATGGGCTCA`		+	18559006	18559017	-283	-272
	AtREG396	`TTAATGGG`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG372	`AATGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG485	`TGGGCTCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`ATAAGGCCCATTG`		+	18559021	18559033	-268	-256
	AtREG425	`ATAAGGCC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG351	`TAAGGCCC`		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`
	AtREG551	`GCCCATTG`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTTCCGGTTCA`		+	18559094	18559104	-195	-185
	AtREG644	`TTTCCGGT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG534	`TTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG579	`TCCGGTTC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG480	`CCGGTTCA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 120 - 18558720 AT4G40040.1, AT4G40040.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	120	-	18558720	AT4G40040.1, AT4G40040.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 18558743 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558742 AT4G40040.1, AT4G40040.2

TSS clone G clone - 18558720 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558719 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558718 AT4G40040.1, AT4G40040.2

TSS clone G clone - 18558717 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558716 AT4G40040.1, AT4G40040.2

TSS clone C clone - 18558715 AT4G40040.1, AT4G40040.2

TSS clone G clone - 18558713 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558712 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558710 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558709 AT4G40040.1, AT4G40040.2

TSS clone T clone - 18558708 AT4G40040.1, AT4G40040.2

TSS clone T clone - 18558706 AT4G40040.1, AT4G40040.2

TSS clone T clone - 18558703 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558694 AT4G40040.1, AT4G40040.2

TSS clone A clone - 18558675 AT4G40040.1, AT4G40040.2

TSS clone G clone - 18558669 AT4G40040.1, AT4G40040.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	18558743	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558742	AT4G40040.1, AT4G40040.2
TSS clone	`G`	clone	-	18558720	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558719	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558718	AT4G40040.1, AT4G40040.2
TSS clone	`G`	clone	-	18558717	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558716	AT4G40040.1, AT4G40040.2
TSS clone	`C`	clone	-	18558715	AT4G40040.1, AT4G40040.2
TSS clone	`G`	clone	-	18558713	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558712	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558710	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558709	AT4G40040.1, AT4G40040.2
TSS clone	`T`	clone	-	18558708	AT4G40040.1, AT4G40040.2
TSS clone	`T`	clone	-	18558706	AT4G40040.1, AT4G40040.2
TSS clone	`T`	clone	-	18558703	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558694	AT4G40040.1, AT4G40040.2
TSS clone	`A`	clone	-	18558675	AT4G40040.1, AT4G40040.2
TSS clone	`G`	clone	-	18558669	AT4G40040.1, AT4G40040.2

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TGCCTATAAATT - 18558744 18558755 AT4G40040.1, AT4G40040.2

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	`TGCCTATAAATT`	-	18558744	18558755	AT4G40040.1, AT4G40040.2
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 CCGTCCGA - 18558781 18558788 AT4G40040.1, AT4G40040.2

AtREG594 CCGTCCGA PPDB Motif PLACE Motif

REG GACCGTTG - 18558872 18558879 AT4G40040.1, AT4G40040.2

AtREG553 GACCGTTG Auxin PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

REG ACGGTTTAT - 18558969 18558977 AT4G40040.1, AT4G40040.2

AtREG652 ACGGTTTA PPDB Motif PLACE Motif

AtREG598 CGGTTTAT PPDB Motif AACCG(G/A) PLACE Motif

REG GGCCTAAA - 18558988 18558995 AT4G40040.1, AT4G40040.2

AtREG430 GGCCTAAA PPDB Motif PLACE Motif

REG TGAGCCCATTAA - 18559006 18559017 AT4G40040.1, AT4G40040.2

AtREG485 TGAGCCCA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372   AGCCCATT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG357    GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG396     CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG