PlantPromoterDB promoter information of AT4G25130.1

Summary of Gene (AT4G25130.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G25130 TAIR NCBI
Gene model	AT4G25130.1
Description	peptide methionine sulfoxide reductase, putative; FUNCTIONS IN: peptide-methionine-(S)-S-oxide reductase activity, oxidoreductase activity, acting on sulfur group of donors, disulfide as acceptor; INVOLVED IN: protein modification process, protein metabolic process; LOCATED IN: chloroplast stroma, chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 16 growth stages; CONTAINS InterPro DOMAIN/s: Methionine sulphoxide reductase A (InterPro:IPR002569); BEST Arabidopsis thaliana protein match is: PMSR1 (PEPTIDEMETHIONINE SULFOXIDE REDUCTASE 1); oxidoreductase, acting on sulfur group of donors, disulfide as acceptor / peptide-methionine-(S)-S-oxide reductase (TAIR:AT5G61640.1); Has 7185 Blast hits to 7183 proteins in 1356 species: Archae - 86; Bacteria - 3332; Metazoa - 164; Fungi - 91; Plants - 129; Viruses - 1; Other Eukaryotes - 3382 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 12900998-12899799)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G25130.1 5'->3' (-) Promoter sequence AT4G25140.1 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 AT4G25130.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 26 - 12900025 -27

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	26	-	12900025	-27

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 12900030 -32

TSS clone A clone - 12900023 -25

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	12900030	-32
TSS clone	`A`	clone	-	12900023	-25

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 CGTCTCTC - 12899977 12899984 21 14

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	`CGTCTCTC`	-	12899977	12899984	21	14
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 TACGGCCCACA - 12900150 12900160 -152 -162

AtREG499 TACGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG368 ACGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG612    GGCCCACA DREB1Aox PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG GTTTGGGCCTT - 12900177 12900187 -179 -189

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

REG TTTGGGCTC - 12900198 12900206 -200 -208

AtREG469 TTTGGGCT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG533 TTGGGCTC PPDB Motif GCCCA PLACE Motif TGGGCY

REG TAAAACGC - 12900217 12900224 -219 -226

AtREG564 TAAAACGC PPDB Motif AAACG(C/G) PLACE Motif

REG CGAACCGA - 12900229 12900236 -231 -238

AtREG575 CGAACCGA PPDB Motif AACCG(G/A) PLACE Motif

REG AGACACGT - 12900273 12900280 -275 -282

AtREG470 AGACACGT ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TACGGCCCACA`		-	12900150	12900160	-152	-162
	AtREG499	`TACGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG368	`ACGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG612	`GGCCCACA`	DREB1Aox	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`GTTTGGGCCTT`		-	12900177	12900187	-179	-189
	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`
REG	`TTTGGGCTC`		-	12900198	12900206	-200	-208
	AtREG469	`TTTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG533	`TTGGGCTC`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`TAAAACGC`		-	12900217	12900224	-219	-226
	AtREG564	`TAAAACGC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`CGAACCGA`		-	12900229	12900236	-231	-238
	AtREG575	`CGAACCGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`AGACACGT`		-	12900273	12900280	-275	-282
	AtREG470	`AGACACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACGTGKC, ACGTGTC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 12900415 AT4G25140.1

TSS clone T clone + 12900421 AT4G25140.1

TSS clone A clone + 12900425 AT4G25140.1

TSS clone A clone + 12900426 AT4G25140.1

TSS clone A clone + 12900428 AT4G25140.1

TSS clone A clone + 12900430 AT4G25140.1

TSS clone T clone + 12900431 AT4G25140.1

TSS clone peak A clone + 12900458 AT4G25140.1

TSS clone T clone + 12900459 AT4G25140.1

TSS clone T clone + 12900471 AT4G25140.1

TSS clone T clone + 12900481 AT4G25140.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	12900415	AT4G25140.1
TSS clone	`T`	clone	+	12900421	AT4G25140.1
TSS clone	`A`	clone	+	12900425	AT4G25140.1
TSS clone	`A`	clone	+	12900426	AT4G25140.1
TSS clone	`A`	clone	+	12900428	AT4G25140.1
TSS clone	`A`	clone	+	12900430	AT4G25140.1
TSS clone	`T`	clone	+	12900431	AT4G25140.1
TSS clone peak	`A`	clone	+	12900458	AT4G25140.1
TSS clone	`T`	clone	+	12900459	AT4G25140.1
TSS clone	`T`	clone	+	12900471	AT4G25140.1
TSS clone	`T`	clone	+	12900481	AT4G25140.1

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 TCTCTCAT + 12900452 12900459 AT4G25140.1

Y Patch TTCTCTCT + 12900471 12900478 AT4G25140.1

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	None	None	None
Y Patch	`TCTCTCAT`	+	12900452	12900459	AT4G25140.1
Y Patch	`TTCTCTCT`	+	12900471	12900478	AT4G25140.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TGTGGGCCGTA + 12900150 12900160 AT4G25140.1

AtREG612 TGTGGGCC    DREB1Aox PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG368   TGGGCCGT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG499    GGGCCGTA PPDB Motif GCCCA PLACE Motif GGGCC

REG AAGGCCCAAAC + 12900177 12900187 AT4G25140.1

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 GAGCCCAAA + 12900198 12900206 AT4G25140.1

AtREG533 GAGCCCAA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG469 AGCCCAAA PPDB Motif GCCCA PLACE Motif TGGGCY

REG GCGTTTTA + 12900217 12900224 AT4G25140.1

AtREG564 GCGTTTTA PPDB Motif AAACG(C/G) PLACE Motif

REG TCGGTTCG + 12900229 12900236 AT4G25140.1

AtREG575 TCGGTTCG PPDB Motif AACCG(G/A) PLACE Motif

REG ACGTGTCT + 12900273 12900280 AT4G25140.1

AtREG470 ACGTGTCT ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

REG AACACGTGGC + 12900333 12900342 AT4G25140.1

AtREG590 AACACGTG   ABA, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG382 ACACGTGG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG367   CACGTGGC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC

REG TGACACGTGAC + 12900366 12900376 AT4G25140.1

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

AtREG366 GACACGTG   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG628   ACACGTGA DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG583    CACGTGAC PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG