PlantPromoterDB promoter information of AT1G15270.1

Summary of Gene (AT1G15270.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G15270 TAIR NCBI
Gene model	AT1G15270.1
Description	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: plasma membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Translation machinery associated TMA7 (InterPro:IPR015157); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT3G16040.1); Has 263 Blast hits to 263 proteins in 90 species: Archae - 0; Bacteria - 0; Metazoa - 153; Fungi - 48; Plants - 41; Viruses - 0; Other Eukaryotes - 21 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 5253020-5251821)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G15270.1 5'->3' (-) Promoter sequence AT1G15280.1 AT1G15280.2 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 AT1G15270.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 - 5252095 -75

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	-	5252095	-75

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 5252096 -76

TSS clone T clone - 5252094 -74

TSS clone A clone - 5252093 -73

TSS clone C clone - 5252092 -72

TSS clone G clone - 5252090 -70

TSS clone T clone - 5252089 -69

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	5252096	-76
TSS clone	`T`	clone	-	5252094	-74
TSS clone	`A`	clone	-	5252093	-73
TSS clone	`C`	clone	-	5252092	-72
TSS clone	`G`	clone	-	5252090	-70
TSS clone	`T`	clone	-	5252089	-69

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 CATTATAAATA - 5252125 5252135 -105 -115

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	`CATTATAAATA`	-	5252125	5252135	-105	-115
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 AGCCCATTTA - 5252161 5252170 -141 -150

AtREG372 AGCCCATT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG386 GCCCATTT PPDB Motif GCCCA PLACE Motif

AtREG443   CCCATTTA PPDB Motif GCCCA PLACE Motif

REG GGCCTTTTAATGGGCCATA - 5252180 5252198 -160 -178

AtREG459 GGCCTTTT            PPDB Motif PLACE Motif

AtREG396       TTAATGGG      PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357        TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361         AATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490          ATGGGCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437           TGGGCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG479            GGGCCATA PPDB Motif GCCCA PLACE Motif GGGCC

REG TTTAACGGGCCCAAAA - 5252210 5252225 -190 -205

AtREG610 TTTAACGG         PPDB Motif PLACE Motif YAACKG, CNGTTR

AtREG399   TAACGGGC       PPDB Motif ACGGGC PLACE Motif YAACKG, CNGTTR

AtREG401    AACGGGCC      PPDB Motif AAACG(C/G), ACGGGC, CCAACGG PLACE Motif GGGCC

AtREG392       GGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373        GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG529         GCCCAAAA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AGCCCATTTA`		-	5252161	5252170	-141	-150
	AtREG372	`AGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG443	`CCCATTTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GGCCTTTTAATGGGCCATA`		-	5252180	5252198	-160	-178
	AtREG459	`GGCCTTTT`		PPDB Motif		PLACE Motif
	AtREG396	`TTAATGGG`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`ATGGGCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG437	`TGGGCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG479	`GGGCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`TTTAACGGGCCCAAAA`		-	5252210	5252225	-190	-205
	AtREG610	`TTTAACGG`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`
	AtREG399	`TAACGGGC`		PPDB Motif	`ACGGGC`	PLACE Motif	`YAACKG, CNGTTR`
	AtREG401	`AACGGGCC`		PPDB Motif	`AAACG(C/G), ACGGGC, CCAACGG`	PLACE Motif	`GGGCC`
	AtREG392	`GGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG529	`GCCCAAAA`		PPDB Motif	`GCCCA`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 4 + 5252297 AT1G15280.1, AT1G15280.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	4	+	5252297	AT1G15280.1, AT1G15280.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 5252315 AT1G15280.1, AT1G15280.2

TSS clone T clone + 5252317 AT1G15280.1, AT1G15280.2

TSS clone C clone + 5252318 AT1G15280.1, AT1G15280.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	5252315	AT1G15280.1, AT1G15280.2
TSS clone	`T`	clone	+	5252317	AT1G15280.1, AT1G15280.2
TSS clone	`C`	clone	+	5252318	AT1G15280.1, AT1G15280.2

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 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	None	None	None
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 TAAATGGGCT + 5252161 5252170 AT1G15280.1, AT1G15280.2

AtREG443 TAAATGGG   PPDB Motif GCCCA PLACE Motif

AtREG386 AAATGGGC PPDB Motif GCCCA PLACE Motif

AtREG372   AATGGGCT PPDB Motif GCCCA PLACE Motif TGGGCY

REG TATGGCCCATTAAAAGGCC + 5252180 5252198 AT1G15280.1, AT1G15280.2

AtREG479 TATGGCCC            PPDB Motif GCCCA PLACE Motif GGGCC

AtREG437 ATGGCCCA           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490   TGGCCCAT          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357     GCCCATTA        PPDB Motif GCCCA PLACE Motif

AtREG396      CCCATTAA       PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG459            AAAAGGCC PPDB Motif PLACE Motif

REG TTTTGGGCCCGTTAAA + 5252210 5252225 AT1G15280.1, AT1G15280.2

AtREG529 TTTTGGGC         PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392   TTGGGCCC       PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG401      GGCCCGTT    PPDB Motif AAACG(C/G), ACGGGC, CCAACGG PLACE Motif GGGCC

AtREG399       GCCCGTTA   PPDB Motif ACGGGC PLACE Motif YAACKG, CNGTTR

AtREG610         CCGTTAAA PPDB Motif PLACE Motif YAACKG, CNGTTR