PlantPromoterDB promoter information of AT3G17780.1

Summary of Gene (AT3G17780.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G17780 TAIR NCBI
Gene model	AT3G17780.1
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; LOCATED IN: endomembrane system; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT1G48440.1); Has 58 Blast hits to 58 proteins in 11 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 58; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 6086016-6087215)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G17780.1 5'->3' (+) Promoter sequence AT3G17770.1 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 AT3G17780.1

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 T clone + 6086913 -103

TSS clone peak C clone + 6086919 -97

TSS clone A clone + 6086948 -68

TSS clone G clone + 6086949 -67

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	6086913	-103
TSS clone peak	`C`	clone	+	6086919	-97
TSS clone	`A`	clone	+	6086948	-68
TSS clone	`G`	clone	+	6086949	-67

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 CAATTGGGCCGTAAAAAGGCCCATCA + 6086837 6086862 -179 -154

AtREG647 CAATTGGG                   PPDB Motif PLACE Motif

AtREG418 AATTGGGC                  PPDB Motif GCCCA PLACE Motif

AtREG352   ATTGGGCC                 PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414    TTGGGCCG                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG368     TGGGCCGT               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG499      GGGCCGTA              PPDB Motif GCCCA PLACE Motif GGGCC

AtREG459              AAAAGGCC      PPDB Motif PLACE Motif

AtREG359               AAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353                AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354                 AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG403                  GGCCCATC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG635                   GCCCATCA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CAATTGGGCCGTAAAAAGGCCCATCA`		+	6086837	6086862	-179	-154
	AtREG647	`CAATTGGG`		PPDB Motif		PLACE Motif
	AtREG418	`AATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG414	`TTGGGCCG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG368	`TGGGCCGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG499	`GGGCCGTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG459	`AAAAGGCC`		PPDB Motif		PLACE Motif
	AtREG359	`AAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG403	`GGCCCATC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG635	`GCCCATCA`		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

TSS clone peak A clone - 6086131 AT3G17770.1

TSS clone peak C clone - 6086029 AT3G17770.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`A`	clone	-	6086131	AT3G17770.1
TSS clone peak	`C`	clone	-	6086029	AT3G17770.1

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 TCTTCTCCTCTT - 6086012 6086023 AT3G17770.1

Y Patch TTTCTCTCT - 6086050 6086058 AT3G17770.1

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	`TCTTCTCCTCTT`	-	6086012	6086023	AT3G17770.1
Y Patch	`TTTCTCTCT`	-	6086050	6086058	AT3G17770.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AATTGGGCCTGGCCCATAT - 6086181 6086199 AT3G17770.1

AtREG418 AATTGGGC            PPDB Motif GCCCA PLACE Motif

AtREG352 ATTGGGCC           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   TTGGGCCT          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG370    TGGGCCTG         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG619     GGGCCTGG        PPDB Motif GCCCA PLACE Motif GGGCC

AtREG490          TGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364           GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG432            GCCCATAT PPDB Motif GCCCA PLACE Motif

REG TCACGTGTT - 6086293 6086301 AT3G17770.1

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

AtREG590 CACGTGTT ABA, JA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

REG GACGACGT - 6086309 6086316 AT3G17770.1

AtREG526 GACGACGT PPDB Motif ACGT PLACE Motif ACGT

REG AGCGCGTGGCAC - 6086319 6086330 AT3G17770.1

AtREG381 AGCGCGTG     PPDB Motif ACGCGC PLACE Motif

AtREG444     CGTGGCAC PPDB Motif PLACE Motif GCCAC