PlantPromoterDB promoter information of AT4G25660.1

Summary of Gene (AT4G25660.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G25660 TAIR NCBI
Gene model	AT4G25660.1
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF862, eukaryotic (InterPro:IPR008580); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT4G25680.1); Has 499 Blast hits to 499 proteins in 115 species: Archae - 0; Bacteria - 0; Metazoa - 173; Fungi - 37; Plants - 181; Viruses - 0; Other Eukaryotes - 108 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 13082677-13083876)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G25660.1 5'->3' (+) Promoter sequence AT4G25650.1 AT4G25650.2 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 AT4G25660.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 5 + 13082771 -906

TSS peak G 13 + 13083441 -236

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	5	+	13082771	-906
TSS peak	`G`	13	+	13083441	-236

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 13083439 -238

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	13083439	-238

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 TTGACTTT + 13082558 13082565 -1119 -1112

AtREG632 TTGACTTT PPDB Motif PLACE Motif TTGAC

REG ATCCAACGGTTCAA + 13083232 13083245 -445 -432

AtREG586 ATCCAACG       PPDB Motif CCAACGG PLACE Motif

AtREG554 TCCAACGG      PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

AtREG640       CGGTTCAA PPDB Motif AACCG(G/A) PLACE Motif

REG CTAAACCGGTTAA + 13083307 13083319 -370 -358

AtREG511 CTAAACCG      PPDB Motif AACCG(G/A) PLACE Motif

AtREG412 TAAACCGG     PPDB Motif AACCG(G/A) PLACE Motif

AtREG436   AAACCGGT    PPDB Motif AACCG(G/A) PLACE Motif

AtREG503     ACCGGTTA PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

AtREG501      CCGGTTAA PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTGACTTT`		+	13082558	13082565	-1119	-1112
	AtREG632	`TTGACTTT`		PPDB Motif		PLACE Motif	`TTGAC`
REG	`ATCCAACGGTTCAA`		+	13083232	13083245	-445	-432
	AtREG586	`ATCCAACG`		PPDB Motif	`CCAACGG`	PLACE Motif
	AtREG554	`TCCAACGG`		PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`
	AtREG640	`CGGTTCAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`CTAAACCGGTTAA`		+	13083307	13083319	-370	-358
	AtREG511	`CTAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG412	`TAAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG436	`AAACCGGT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG503	`ACCGGTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif	`CNGTTR`
	AtREG501	`CCGGTTAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif	`CNGTTR`

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 A clone - 13083201 AT4G25650.1, AT4G25650.2

TSS clone T clone - 13083197 AT4G25650.1, AT4G25650.2

TSS clone peak G clone - 13083189 AT4G25650.1, AT4G25650.2

TSS clone A clone - 13083166 AT4G25650.1, AT4G25650.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	13083201	AT4G25650.1, AT4G25650.2
TSS clone	`T`	clone	-	13083197	AT4G25650.1, AT4G25650.2
TSS clone peak	`G`	clone	-	13083189	AT4G25650.1, AT4G25650.2
TSS clone	`A`	clone	-	13083166	AT4G25650.1, AT4G25650.2

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TTATAAATT - 13083224 13083232 AT4G25650.1, AT4G25650.2

Y Patch CGTCTCTC - 13083178 13083185 AT4G25650.1, AT4G25650.2

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	`TTATAAATT`	-	13083224	13083232	AT4G25650.1, AT4G25650.2
Y Patch	`CGTCTCTC`	-	13083178	13083185	AT4G25650.1, AT4G25650.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TTGAACCG - 13083238 13083245 AT4G25650.1, AT4G25650.2

AtREG640 TTGAACCG PPDB Motif AACCG(G/A) PLACE Motif

REG TTAACCGGTTTAG - 13083307 13083319 AT4G25650.1, AT4G25650.2

AtREG501 TTAACCGG      PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

AtREG503 TAACCGGT     PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

AtREG436    ACCGGTTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG412     CCGGTTTA PPDB Motif AACCG(G/A) PLACE Motif

AtREG511      CGGTTTAG PPDB Motif AACCG(G/A) PLACE Motif