PlantPromoterDB promoter information of AT3G49870.1

Summary of Gene (AT3G49870.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G49870 TAIR NCBI
Gene model	AT3G49870.1
Description	A member of ARF-like GTPase family. A thaliana has 21 members, in two subfamilies, ARF and ARF-like (ARL) GTPases.

#

Overview

Focused view (chromosome 3: 18504771-18503572)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G49870.1 5'->3' (-) Promoter sequence AT3G49910.1 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 AT3G49870.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 33 - 18494133 -112

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	33	-	18494133	-112

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 18494139 -118

TSS clone T clone - 18494128 -107

TSS clone T clone - 18494125 -104

TSS clone A clone - 18494122 -101

TSS clone A clone - 18494092 -71

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	18494139	-118
TSS clone	`T`	clone	-	18494128	-107
TSS clone	`T`	clone	-	18494125	-104
TSS clone	`A`	clone	-	18494122	-101
TSS clone	`A`	clone	-	18494092	-71

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 TCACGCGCTT - 18494394 18494403 -373 -382

AtREG395 TCACGCGC PPDB Motif ACGCGC PLACE Motif

AtREG381 CACGCGCT PPDB Motif ACGCGC PLACE Motif

AtREG492 ACGCGCTT PPDB Motif ACGCGC PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TCACGCGCTT`		-	18494394	18494403	-373	-382
	AtREG395	`TCACGCGC`		PPDB Motif	`ACGCGC`	PLACE Motif
	AtREG381	`CACGCGCT`		PPDB Motif	`ACGCGC`	PLACE Motif
	AtREG492	`ACGCGCTT`		PPDB Motif	`ACGCGC`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 8 + 18504259 AT3G49910.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	8	+	18504259	AT3G49910.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 18504257 AT3G49910.1

TSS clone C clone + 18504258 AT3G49910.1

TSS clone A clone + 18504259 AT3G49910.1

TSS clone T clone + 18504260 AT3G49910.1

TSS clone G clone + 18504284 AT3G49910.1

TSS clone C clone + 18504299 AT3G49910.1

TSS clone C clone + 18504300 AT3G49910.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	18504257	AT3G49910.1
TSS clone	`C`	clone	+	18504258	AT3G49910.1
TSS clone	`A`	clone	+	18504259	AT3G49910.1
TSS clone	`T`	clone	+	18504260	AT3G49910.1
TSS clone	`G`	clone	+	18504284	AT3G49910.1
TSS clone	`C`	clone	+	18504299	AT3G49910.1
TSS clone	`C`	clone	+	18504300	AT3G49910.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box ACTATATAAC + 18504221 18504230 AT3G49910.1

Y Patch CTCTTCCTC + 18504250 18504258 AT3G49910.1

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	`ACTATATAAC`	+	18504221	18504230	AT3G49910.1
Y Patch	`CTCTTCCTC`	+	18504250	18504258	AT3G49910.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG GTCGTTTT + 18504029 18504036 AT3G49910.1

AtREG520 GTCGTTTT PPDB Motif PLACE Motif

REG AGAGGCCCATTAT + 18504116 18504128 AT3G49910.1

AtREG411 AGAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG447 GAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   AGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357     GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG546      CCCATTAT PPDB Motif PLACE Motif

REG ACAGGCCCAGCCCATTC + 18504155 18504171 AT3G49910.1

AtREG433 ACAGGCCC          PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370 CAGGCCCA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410   AGGCCCAG        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG454     GCCCAGCC      PPDB Motif GCCCA PLACE Motif

AtREG372         AGCCCATT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG643          GCCCATTC PPDB Motif GCCCA PLACE Motif

REG CAAAGCCCTA + 18504176 18504185 AT3G49910.1

AtREG559 CAAAGCCC   PPDB Motif GCCCA PLACE Motif

AtREG651   AAGCCCTA PPDB Motif PLACE Motif