PlantPromoterDB promoter information of AT5G06340.1

Summary of Gene (AT5G06340.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G06340 TAIR NCBI
Gene model	AT5G06340.1
Description	ARABIDOPSIS THALIANA NUDIX HYDROLASE HOMOLOG 27 (ATNUDX27); FUNCTIONS IN: bis(5'-adenosyl)-pentaphosphatase activity, bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: NUDIX (InterPro:IPR015797), NUDIX hydrolase, core (InterPro:IPR000086); BEST Arabidopsis thaliana protein match is: ATNUDX26 (ARABIDOPSIS THALIANA NUDIX HYDROLASE HOMOLOG 26); bis(5'-adenosyl)-pentaphosphatase/ bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (TAIR:AT3G10620.1); Has 3191 Blast hits to 3191 proteins in 724 species: Archae - 2; Bacteria - 1483; Metazoa - 9; Fungi - 0; Plants - 37; Viruses - 0; Other Eukaryotes - 1660 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 1935467-1936666)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G06340.1 5'->3' (+) Promoter sequence AT5G06330.1 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 AT5G06340.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 74 + 1936406 -61

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	74	+	1936406	-61

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 1936366 -101

TSS clone A clone + 1936403 -64

TSS clone A clone + 1936406 -61

TSS clone C clone + 1936407 -60

TSS clone C clone + 1936421 -46

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	1936366	-101
TSS clone	`A`	clone	+	1936403	-64
TSS clone	`A`	clone	+	1936406	-61
TSS clone	`C`	clone	+	1936407	-60
TSS clone	`C`	clone	+	1936421	-46

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 TAATTGGGCTTTTA + 1936192 1936205 -275 -262

AtREG600 TAATTGGG       PPDB Motif GCCCA PLACE Motif

AtREG418 AATTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG402   ATTGGGCT     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407    TTGGGCTT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376     TGGGCTTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG409      GGGCTTTT PPDB Motif GCCCA PLACE Motif

AtREG549       GGCTTTTA PPDB Motif PLACE Motif

REG GGCCTTTT + 1936225 1936232 -242 -235

AtREG459 GGCCTTTT PPDB Motif PLACE Motif

REG AAATGGGCCCAATA + 1936252 1936265 -215 -202

AtREG386 AAATGGGC       PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG391   ATGGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG422    TGGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392     GGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352      GGCCCAAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355       GCCCAATA PPDB Motif GCCCA PLACE Motif

REG TTTGACCC + 1936304 1936311 -163 -156

AtREG592 TTTGACCC PPDB Motif PLACE Motif TTGAC, TTGACC

REG TAAGGGTA + 1936350 1936357 -117 -110

AtREG570 TAAGGGTA PPDB Motif ACCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TAATTGGGCTTTTA`		+	1936192	1936205	-275	-262
	AtREG600	`TAATTGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG418	`AATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG402	`ATTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`TTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG376	`TGGGCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG409	`GGGCTTTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG549	`GGCTTTTA`		PPDB Motif		PLACE Motif
REG	`GGCCTTTT`		+	1936225	1936232	-242	-235
	AtREG459	`GGCCTTTT`		PPDB Motif		PLACE Motif
REG	`AAATGGGCCCAATA`		+	1936252	1936265	-215	-202
	AtREG386	`AAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG391	`ATGGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG422	`TGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`GGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTTGACCC`		+	1936304	1936311	-163	-156
	AtREG592	`TTTGACCC`		PPDB Motif		PLACE Motif	`TTGAC, TTGACC`
REG	`TAAGGGTA`		+	1936350	1936357	-117	-110
	AtREG570	`TAAGGGTA`		PPDB Motif	`ACCCT`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 4 - 1935630 AT5G06330.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	4	-	1935630	AT5G06330.1

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 CTTCTATATAAAGG - 1935656 1935669 AT5G06330.1

Y Patch CTTTCTCTCT - 1935620 1935629 AT5G06330.1

Y Patch CTTCTTCT - 1935665 1935672 AT5G06330.1

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	`CTTCTATATAAAGG`	-	1935656	1935669	AT5G06330.1
Y Patch	`CTTTCTCTCT`	-	1935620	1935629	AT5G06330.1
Y Patch	`CTTCTTCT`	-	1935665	1935672	AT5G06330.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG None None None