PlantPromoterDB promoter information of AT5G49510.2

Summary of Gene (AT5G49510.2)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G49510 TAIR NCBI
Gene model	AT5G49510.2
Description	PREFOLDIN 3 (PDF3); FUNCTIONS IN: unfolded protein binding; INVOLVED IN: protein folding; LOCATED IN: prefoldin complex; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Prefoldin alpha-like (InterPro:IPR004127), Prefoldin (InterPro:IPR009053), Prefoldin, subunit 3 (InterPro:IPR016655); Has 310 Blast hits to 310 proteins in 149 species: Archae - 0; Bacteria - 0; Metazoa - 138; Fungi - 87; Plants - 23; Viruses - 0; Other Eukaryotes - 62 (source: NCBI BLink).

#

Overview

Focused view (chromosome 5: 20079729-20080928)

`Genome position from initiation codon` `AT5G49510.1 TSS from cDNA TSS information AT5G49510.2 5'->3' (+) Promoter sequence AT5G49500.1 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 AT5G49510.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak T 4 + 20080634 -95

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`T`	4	+	20080634	-95

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 20080615 -114

TSS clone A clone + 20080621 -108

TSS clone G clone + 20080639 -90

TSS clone T clone + 20080645 -84

TSS clone G clone + 20080648 -81

TSS clone A clone + 20080670 -59

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	20080615	-114
TSS clone	`A`	clone	+	20080621	-108
TSS clone	`G`	clone	+	20080639	-90
TSS clone	`T`	clone	+	20080645	-84
TSS clone	`G`	clone	+	20080648	-81
TSS clone	`A`	clone	+	20080670	-59

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 ATAAACCGGTTA + 20080369 20080380 -360 -349

AtREG598 ATAAACCG     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

REG TCAAAACGATGGGCTTA + 20080384 20080400 -345 -329

AtREG653 TCAAAACG          PPDB Motif AAACG(C/G) PLACE Motif

AtREG378         ATGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426          TGGGCTTA PPDB Motif GCCCA PLACE Motif TGGGCY

REG ATAGGCCCAATAG + 20080411 20080423 -318 -306

AtREG362 ATAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358 TAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   AGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352    GGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355     GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG624      CCCAATAG PPDB Motif GCCCA PLACE Motif

REG GAACCGGCCTAAT + 20080510 20080522 -219 -207

AtREG637 GAACCGGC      PPDB Motif AACCG(G/A) PLACE Motif

AtREG506      GGCCTAAT PPDB Motif PLACE Motif

REG AACCGCGT + 20080533 20080540 -196 -189

AtREG441 AACCGCGT Drought PPDB Motif PLACE Motif

REG TAATGGGCCTG + 20080554 20080564 -175 -165

AtREG357 TAATGGGC    PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG370    TGGGCCTG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG GGCCTTTT + 20080568 20080575 -161 -154

AtREG459 GGCCTTTT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATAAACCGGTTA`		+	20080369	20080380	-360	-349
	AtREG598	`ATAAACCG`		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`
REG	`TCAAAACGATGGGCTTA`		+	20080384	20080400	-345	-329
	AtREG653	`TCAAAACG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG378	`ATGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG426	`TGGGCTTA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`ATAGGCCCAATAG`		+	20080411	20080423	-318	-306
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG356	`AGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG352	`GGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG624	`CCCAATAG`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`GAACCGGCCTAAT`		+	20080510	20080522	-219	-207
	AtREG637	`GAACCGGC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG506	`GGCCTAAT`		PPDB Motif		PLACE Motif
REG	`AACCGCGT`		+	20080533	20080540	-196	-189
	AtREG441	`AACCGCGT`	Drought	PPDB Motif		PLACE Motif
REG	`TAATGGGCCTG`		+	20080554	20080564	-175	-165
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`ATGGGCCT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG370	`TGGGCCTG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`GGCCTTTT`		+	20080568	20080575	-161	-154
	AtREG459	`GGCCTTTT`		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

TSS clone peak A clone - 20080331 AT5G49500.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`A`	clone	-	20080331	AT5G49500.1

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 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