PlantPromoterDB promoter information of AT3G46640

Summary of Gene (AT3G46640)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G46640 TAIR NCBI
Gene model	AT3G46640
Description	Encodes a myb family transcription factor with a single Myb DNA-binding domain (type SHAQKYF) that is unique to plants and is essential for circadian rhythms, specifically for transcriptional regulation within the circadian clock. LUX is required for normal rhythmic expression of multiple clock outputs in both constant light and darkness. It is coregulated with TOC1 and seems to be repressed by CCA1 and LHY by direct binding of these proteins to the evening element in the LUX promoter.

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Overview

Focused view (chromosome 3: 17182248-17183447)

`Genome position from initiation codon` `AT3G46640.1 AT3G46640.2 TSS from cDNA TSS information AT3G46640 5'->3' (+) Promoter sequence AT3G46630.1 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 AT3G46640

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone + 17183090 -158

TSS clone T clone + 17183091 -157

TSS clone peak C clone + 17183094 -154

TSS clone C clone + 17183096 -152

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	+	17183090	-158
TSS clone	`T`	clone	+	17183091	-157
TSS clone peak	`C`	clone	+	17183094	-154
TSS clone	`C`	clone	+	17183096	-152

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 None None None

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	None	None	None

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 2 - 17182478 AT3G46630.1

TSS peak G 2 - 17182440 AT3G46630.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	2	-	17182478	AT3G46630.1
TSS peak	`G`	2	-	17182440	AT3G46630.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 17182386 AT3G46630.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	17182386	AT3G46630.1

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 TCTTCTTC - 17182413 17182420 AT3G46630.1

Y Patch TCTTCTTCTC - 17182457 17182466 AT3G46630.1

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	`TCTTCTTC`	-	17182413	17182420	AT3G46630.1
Y Patch	`TCTTCTTCTC`	-	17182457	17182466	AT3G46630.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG ACGTCACG - 17182505 17182512 AT3G46630.1

AtREG489 ACGTCACG ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT

REG CCGTTGGAT - 17182651 17182659 AT3G46630.1

AtREG554 CCGTTGGA PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

AtREG586 CGTTGGAT PPDB Motif CCAACGG PLACE Motif

REG AAAACCGGT - 17182744 17182752 AT3G46630.1

AtREG542 AAAACCGG PPDB Motif AACCG(G/A) PLACE Motif

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

REG GGGCCTAG - 17182766 17182773 AT3G46630.1

AtREG475 GGGCCTAG PPDB Motif GCCCA PLACE Motif GGGCC