PlantPromoterDB promoter information of AT1G78570

Summary of Gene (AT1G78570)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G78570 TAIR NCBI
Gene model	AT1G78570
Description	Encodes a UDP-L-Rhamnose synthase involved in the biosynthesis of rhamnose, a major monosaccharide component of pectin. Catalyzes the conversion of UDP-D-Glc to UDP-L-Rha. The dehydrogenase domain of RHM1 was shown to catalyze the conversion of UDP-D-Glc to the reaction intermediate UDP-4-keto-6-deoxy-D-Glc using recombinant protein assay but the activity of the full-length protein was not determined as it could not be expressed in <i>E. coli</i>.

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Overview

Focused view (chromosome 1: 29549110-29550309)

`Genome position from initiation codon` `AT1G78570.1 TSS from cDNA TSS information AT1G78570 5'->3' (+) Promoter sequence 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 AT1G78570

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 59 + 29549650 -460

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	59	+	29549650	-460

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 29549650 -460

TSS clone G clone + 29549651 -459

TSS clone G clone + 29549696 -414

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	29549650	-460
TSS clone	`G`	clone	+	29549651	-459
TSS clone	`G`	clone	+	29549696	-414

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 AGTATATAATG + 29549614 29549624 -496 -486

Y Patch CTTCCCTCTCC + 29549639 29549649 -471 -461

Y Patch TTCTCTTCTTCTTCT + 29549668 29549682 -442 -428

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	`AGTATATAATG`	+	29549614	29549624	-496	-486
Y Patch	`CTTCCCTCTCC`	+	29549639	29549649	-471	-461
Y Patch	`TTCTCTTCTTCTTCT`	+	29549668	29549682	-442	-428
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 CAAAACGCG + 29549519 29549527 -591 -583

AtREG585 CAAAACGC PPDB Motif AAACG(C/G) PLACE Motif CAAAACGC

AtREG566 AAAACGCG PPDB Motif AAACG(C/G) PLACE Motif

REG AAGGGTATTT + 29549590 29549599 -520 -511

AtREG623 AAGGGTAT PPDB Motif ACCCT PLACE Motif

AtREG567 AGGGTATT PPDB Motif ACCCT PLACE Motif

AtREG602 GGGTATTT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CAAAACGCG`		+	29549519	29549527	-591	-583
	AtREG585	`CAAAACGC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif	`CAAAACGC`
	AtREG566	`AAAACGCG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`AAGGGTATTT`		+	29549590	29549599	-520	-511
	AtREG623	`AAGGGTAT`		PPDB Motif	`ACCCT`	PLACE Motif
	AtREG567	`AGGGTATT`		PPDB Motif	`ACCCT`	PLACE Motif
	AtREG602	`GGGTATTT`		PPDB Motif		PLACE Motif

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

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 None None None