PlantPromoterDB promoter information of AT5G02160

Summary of Gene (AT5G02160)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G02160 TAIR NCBI
Gene model	AT5G02160
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast thylakoid membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; Has 20 Blast hits to 20 proteins in 8 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 20; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 425392-426591)

`Genome position from initiation codon` `AT5G02160.1 TSS from cDNA TSS information AT5G02160 5'->3' (+) Promoter sequence AT5G02150.1 AT5G02150.2 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 AT5G02160

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak C 15 + 426357 -35

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`C`	15	+	426357	-35

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 426273 -119

TSS clone T clone + 426343 -49

TSS clone C clone + 426358 -34

TSS clone A clone + 426360 -32

TSS clone A clone + 426361 -31

TSS clone A clone + 426366 -26

TSS clone A clone + 426375 -17

TSS clone C clone + 426376 -16

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	426273	-119
TSS clone	`T`	clone	+	426343	-49
TSS clone	`C`	clone	+	426358	-34
TSS clone	`A`	clone	+	426360	-32
TSS clone	`A`	clone	+	426361	-31
TSS clone	`A`	clone	+	426366	-26
TSS clone	`A`	clone	+	426375	-17
TSS clone	`C`	clone	+	426376	-16

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 CTTCTTCTT + 426339 426347 -53 -45

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	`CTTCTTCTT`	+	426339	426347	-53	-45
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 GTTTGGGCCTTAT + 426131 426143 -261 -249

AtREG474 GTTTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC     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

AtREG351     GGGCCTTA PPDB Motif GCCCA PLACE Motif GGGCC

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

REG ATAATGGGCTTAACAGGCCCAATTG + 426159 426183 -233 -209

AtREG546 ATAATGGG                  PPDB Motif PLACE Motif

AtREG357 TAATGGGC                 PPDB Motif GCCCA PLACE Motif

AtREG372   AATGGGCT                PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378    ATGGGCTT               PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426     TGGGCTTA              PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG433             ACAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370              CAGGCCCA     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

AtREG418                 GCCCAATT PPDB Motif GCCCA PLACE Motif

AtREG647                  CCCAATTG PPDB Motif PLACE Motif

REG GGGCCTAC + 426205 426212 -187 -180

AtREG435 GGGCCTAC PPDB Motif GCCCA PLACE Motif GGGCC

REG GTGACACGTCACG + 426284 426296 -108 -96

AtREG498 GTGACACG      ABA PPDB Motif PLACE Motif

AtREG389 TGACACGT     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG481   GACACGTC    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG517    ACACGTCA   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG466     CACGTCAC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG489      ACGTCACG ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GTTTGGGCCTTAT`		+	426131	426143	-261	-249
	AtREG474	`GTTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG373	`TTTGGGCC`		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`
	AtREG351	`GGGCCTTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG425	`GGCCTTAT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`ATAATGGGCTTAACAGGCCCAATTG`		+	426159	426183	-233	-209
	AtREG546	`ATAATGGG`		PPDB Motif		PLACE Motif
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG372	`AATGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG378	`ATGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG426	`TGGGCTTA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG433	`ACAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG370	`CAGGCCCA`		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`
	AtREG418	`GCCCAATT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG647	`CCCAATTG`		PPDB Motif		PLACE Motif
REG	`GGGCCTAC`		+	426205	426212	-187	-180
	AtREG435	`GGGCCTAC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`GTGACACGTCACG`		+	426284	426296	-108	-96
	AtREG498	`GTGACACG`	ABA	PPDB Motif		PLACE Motif
	AtREG389	`TGACACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG481	`GACACGTC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`
	AtREG517	`ACACGTCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG466	`CACGTCAC`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG489	`ACGTCACG`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 5 - 426074 AT5G02150.1, AT5G02150.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	5	-	426074	AT5G02150.1, AT5G02150.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone C clone - 426079 AT5G02150.1, AT5G02150.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	-	426079	AT5G02150.1, AT5G02150.2

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 TCTTTCTCTTCTTCC - 426078 426092 AT5G02150.1, AT5G02150.2

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	`TCTTTCTCTTCTTCC`	-	426078	426092	AT5G02150.1, AT5G02150.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG ATAAGGCCCAAAC - 426131 426143 AT5G02150.1, AT5G02150.2

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

AtREG356    AGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373     GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG474      GCCCAAAC PPDB Motif GCCCA PLACE Motif

REG CAATTGGGCCTGTTAAGCCCATTAT - 426159 426183 AT5G02150.1, AT5G02150.2

AtREG647 CAATTGGG                  PPDB Motif PLACE Motif

AtREG418 AATTGGGC                 PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    TTGGGCCT               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG370     TGGGCCTG              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG433      GGGCCTGT             PPDB Motif GCCCA PLACE Motif GGGCC

AtREG426              TAAGCCCA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG378               AAGCCCAT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG372                AGCCCATT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG357                 GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG546                  CCCATTAT PPDB Motif PLACE Motif

REG GTAGGCCC - 426205 426212 AT5G02150.1, AT5G02150.2

AtREG435 GTAGGCCC PPDB Motif GCCCA PLACE Motif GGGCC

REG CGTGACGTGTCAC - 426284 426296 AT5G02150.1, AT5G02150.2

AtREG489 CGTGACGT      ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT

AtREG466 GTGACGTG     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG517   TGACGTGT    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG481    GACGTGTC   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG389     ACGTGTCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG498      CGTGTCAC ABA PPDB Motif PLACE Motif