PlantPromoterDB promoter information of AT3G09470.2

Summary of Gene (AT3G09470.2)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G09470 TAIR NCBI
Gene model	AT3G09470.2
Description	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF895, eukaryotic (InterPro:IPR010291), Major facilitator superfamily, general substrate transporter (InterPro:IPR016196); Has 638 Blast hits to 624 proteins in 112 species: Archae - 2; Bacteria - 10; Metazoa - 433; Fungi - 116; Plants - 40; Viruses - 0; Other Eukaryotes - 37 (source: NCBI BLink).

#

Overview

Focused view (chromosome 3: 2915410-2914211)

`Genome position from initiation codon` `AT3G09470.1 AT3G09480.1 TSS from cDNA TSS information AT3G09470.2 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 AT3G09470.2

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 8 - 2914498 -88

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	8	-	2914498	-88

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone - 2915320 -910

TSS clone C clone - 2915312 -902

TSS clone T clone - 2914513 -103

TSS clone T clone - 2914499 -89

TSS clone A clone - 2914496 -86

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	-	2915320	-910
TSS clone	`C`	clone	-	2915312	-902
TSS clone	`T`	clone	-	2914513	-103
TSS clone	`T`	clone	-	2914499	-89
TSS clone	`A`	clone	-	2914496	-86

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 CCTCTATATATATCT - 2915344 2915358 -934 -948

Y Patch CTCTCTCC - 2914474 2914481 -64 -71

Y Patch TCTCTCTCTCT - 2914499 2914509 -89 -99

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	`CCTCTATATATATCT`	-	2915344	2915358	-934	-948
Y Patch	`CTCTCTCC`	-	2914474	2914481	-64	-71
Y Patch	`TCTCTCTCTCT`	-	2914499	2914509	-89	-99
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 ATAAACCGAACCG - 2914561 2914573 -151 -163

AtREG598 ATAAACCG      PPDB Motif AACCG(G/A) PLACE Motif

AtREG514 TAAACCGA     PPDB Motif AACCG(G/A) PLACE Motif

AtREG568   AAACCGAA    PPDB Motif AACCG(G/A) PLACE Motif

AtREG556    AACCGAAC   PPDB Motif AACCG(G/A) PLACE Motif

AtREG451     ACCGAACC PPDB Motif PLACE Motif

AtREG456      CCGAACCG PPDB Motif AACCG(G/A) PLACE Motif

REG ATTGGCCCAGCCCAACA - 2914634 2914650 -224 -240

AtREG446 ATTGGCCC          CK PPDB Motif GCCCA PLACE Motif GGGCC

AtREG484 TTGGCCCA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG458   TGGCCCAG        PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG454     GCCCAGCC      PPDB Motif GCCCA PLACE Motif

AtREG574         AGCCCAAC PPDB Motif GCCCA, CCAACGG PLACE Motif TGGGCY

AtREG543          GCCCAACA PPDB Motif GCCCA PLACE Motif CAACA

REG ACGCCACGTAG - 2915404 2915414 -994 -1004

AtREG508 ACGCCACG    PPDB Motif PLACE Motif GCCAC

AtREG371 CGCCACGT   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG413   GCCACGTA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG495    CCACGTAG PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG CGCACGTG - 2915418 2915425 -1008 -1015

AtREG541 CGCACGTG PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

REG GTTCGGTT - 2915463 2915470 -1053 -1060

AtREG556 GTTCGGTT PPDB Motif AACCG(G/A) PLACE Motif

REG TGAGCCCA - 2915477 2915484 -1067 -1074

AtREG485 TGAGCCCA PPDB Motif GCCCA PLACE Motif TGGGCY

REG AAAAGGCCAAGGCCCATTAG - 2915486 2915505 -1076 -1095

AtREG459 AAAAGGCC             PPDB Motif PLACE Motif

AtREG398        CAAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353         AAGGCCCA     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

AtREG558             CCCATTAG PPDB Motif GCCCA PLACE Motif

REG CCCAATAA - 2915611 2915618 -1201 -1208

AtREG417 CCCAATAA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATAAACCGAACCG`		-	2914561	2914573	-151	-163
	AtREG598	`ATAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG514	`TAAACCGA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG568	`AAACCGAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG556	`AACCGAAC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG451	`ACCGAACC`		PPDB Motif		PLACE Motif
	AtREG456	`CCGAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`ATTGGCCCAGCCCAACA`		-	2914634	2914650	-224	-240
	AtREG446	`ATTGGCCC`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG484	`TTGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG458	`TGGCCCAG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG454	`GCCCAGCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG574	`AGCCCAAC`		PPDB Motif	`GCCCA, CCAACGG`	PLACE Motif	`TGGGCY`
	AtREG543	`GCCCAACA`		PPDB Motif	`GCCCA`	PLACE Motif	`CAACA`
REG	`ACGCCACGTAG`		-	2915404	2915414	-994	-1004
	AtREG508	`ACGCCACG`		PPDB Motif		PLACE Motif	`GCCAC`
	AtREG371	`CGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG413	`GCCACGTA`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG495	`CCACGTAG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
REG	`CGCACGTG`		-	2915418	2915425	-1008	-1015
	AtREG541	`CGCACGTG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG`
REG	`GTTCGGTT`		-	2915463	2915470	-1053	-1060
	AtREG556	`GTTCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TGAGCCCA`		-	2915477	2915484	-1067	-1074
	AtREG485	`TGAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
REG	`AAAAGGCCAAGGCCCATTAG`		-	2915486	2915505	-1076	-1095
	AtREG459	`AAAAGGCC`		PPDB Motif		PLACE Motif
	AtREG398	`CAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		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
	AtREG558	`CCCATTAG`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CCCAATAA`		-	2915611	2915618	-1201	-1208
	AtREG417	`CCCAATAA`		PPDB Motif	`GCCCA`	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 CTACGTGGCGT + 2915404 2915414 AT3G09490.1

AtREG495 CTACGTGG    PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG413 TACGTGGC   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG371   ACGTGGCG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG508    CGTGGCGT PPDB Motif PLACE Motif GCCAC