PlantPromoterDB promoter information of AT3G12320

Summary of Gene (AT3G12320)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G12320 TAIR NCBI
Gene model	AT3G12320
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 14 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT5G06980.1); Has 49 Blast hits to 49 proteins in 10 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 47; Viruses - 0; Other Eukaryotes - 2 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 3923034-3924233)

`Genome position from initiation codon` `AT3G12320.1 TSS from cDNA TSS information AT3G12320 5'->3' (+) Promoter sequence AT3G12300.1 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 AT3G12320

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 5 + 3923749 -285

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	5	+	3923749	-285

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 3923735 -299

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	3923735	-299

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 CGTCTTCTTCTCTCTCTCTTTCTCT + 3923754 3923778 -280 -256

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	`CGTCTTCTTCTCTCTCTCTTTCTCT`	+	3923754	3923778	-280	-256
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 GTACACGTGGGCCAAT + 3923573 3923588 -461 -446

AtREG562 GTACACGT         ABA, Auxin PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG453 TACACGTG        ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACACNNG

AtREG382   ACACGTGG       ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG464    CACGTGGG      ABA, Auxin, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

AtREG484        TGGGCCAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG446         GGGCCAAT CK PPDB Motif GCCCA PLACE Motif GGGCC

REG TCACGCGCC + 3923670 3923678 -364 -356

AtREG395 TCACGCGC PPDB Motif ACGCGC PLACE Motif

AtREG486 CACGCGCC PPDB Motif ACGCGC PLACE Motif

REG TCACGCGCTT + 3923686 3923695 -348 -339

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	`GTACACGTGGGCCAAT`		+	3923573	3923588	-461	-446
	AtREG562	`GTACACGT`	ABA, Auxin	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG453	`TACACGTG`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACACNNG`
	AtREG382	`ACACGTGG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACACNNG`
	AtREG464	`CACGTGGG`	ABA, Auxin, JA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG`
	AtREG484	`TGGGCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG446	`GGGCCAAT`	CK	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`TCACGCGCC`		+	3923670	3923678	-364	-356
	AtREG395	`TCACGCGC`		PPDB Motif	`ACGCGC`	PLACE Motif
	AtREG486	`CACGCGCC`		PPDB Motif	`ACGCGC`	PLACE Motif
REG	`TCACGCGCTT`		+	3923686	3923695	-348	-339
	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 5 - 3923145 AT3G12300.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	5	-	3923145	AT3G12300.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone C clone - 3923143 AT3G12300.1

TSS clone G clone - 3923122 AT3G12300.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	-	3923143	AT3G12300.1
TSS clone	`G`	clone	-	3923122	AT3G12300.1

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 CTTCTTCTTCTC - 3923132 3923143 AT3G12300.1

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	`CTTCTTCTTCTC`	-	3923132	3923143	AT3G12300.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG GGCTTTATTAGTGGGCCGAGGCCCAAG - 3923207 3923233 AT3G12300.1

AtREG601 GGCTTTAT                    PPDB Motif PLACE Motif

AtREG532         TAGTGGGC            PPDB Motif GCCCA PLACE Motif

AtREG393            TGGGCCGA         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG447                  GAGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356                   AGGCCCAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG505                    GGCCCAAG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG AGACACGTGGCAT - 3923340 3923352 AT3G12300.1

AtREG470 AGACACGT      ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG366 GACACGTG     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACGTGKC, ACACNNG, ACGTGTC

AtREG382   ACACGTGG    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG367    CACGTGGC   ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC

AtREG379     ACGTGGCA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG448      CGTGGCAT ABA, DREB1Aox PPDB Motif PLACE Motif GCCAC

REG CACACGTGACA - 3923371 3923381 AT3G12300.1

AtREG460 CACACGTG    ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG628 ACACGTGA   DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG583   CACGTGAC PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG

AtREG606    ACGTGACA ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

REG GACGTGTCT - 3923401 3923409 AT3G12300.1

AtREG481 GACGTGTC ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC

AtREG470 ACGTGTCT ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACGTGKC, ACGTGTC