PlantPromoterDB promoter information of AT2G48090.1

Summary of Gene (AT2G48090.1)

Organism	Arabidopsis thaliana
Chromosome	2
Locus	AT2G48090 TAIR NCBI
Gene model	AT2G48090.1
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: male gametophyte, flower, root, carpel; EXPRESSED DURING: 4 anthesis, petal differentiation and expansion stage; Has 3 Blast hits to 3 proteins in 1 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 3; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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Overview

Focused view (chromosome 2: 19670729-19669530)

`Genome position from initiation codon` `TSS from cDNA TSS information AT2G48090.1 5'->3' (-) Promoter sequence AT2G48100.1 AT2G48100.2 AT2G48100.3 AT2G48100.4 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 AT2G48090.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 2 - 19669880 -151

TSS peak G 4 - 19669766 -37

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	2	-	19669880	-151
TSS peak	`G`	4	-	19669766	-37

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 CATTATAAAAA - 19669792 19669802 -63 -73

Y Patch TCTTCTCT - 19669767 19669774 -38 -45

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	`CATTATAAAAA`	-	19669792	19669802	-63	-73
Y Patch	`TCTTCTCT`	-	19669767	19669774	-38	-45
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 None None None

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	None	None	None

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 21 + 19670554 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	21	+	19670554	AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone + 19670501 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

TSS clone C clone + 19670502 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

TSS clone A clone + 19670555 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

TSS clone C clone + 19670561 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	+	19670501	AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4
TSS clone	`C`	clone	+	19670502	AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4
TSS clone	`A`	clone	+	19670555	AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4
TSS clone	`C`	clone	+	19670561	AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box AATATAAAAC + 19670522 19670531 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

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	`AATATAAAAC`	+	19670522	19670531	AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4
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 AACCCGGTTTT + 19670330 19670340 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

AtREG516 AACCCGGT    PPDB Motif PLACE Motif

AtREG455 ACCCGGTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG542    CCGGTTTT PPDB Motif AACCG(G/A) PLACE Motif

REG CGGGTCCGGTTTT + 19670355 19670367 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

AtREG491 CGGGTCCG      PPDB Motif PLACE Motif

AtREG573    GTCCGGTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG521     TCCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

AtREG542      CCGGTTTT PPDB Motif AACCG(G/A) PLACE Motif

REG GGCCTAAA + 19670423 19670430 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

AtREG430 GGCCTAAA PPDB Motif PLACE Motif

REG AAATGGGCCTTTAA + 19670448 19670461 AT2G48100.1, AT2G48100.2, AT2G48100.3, AT2G48100.4

AtREG386 AAATGGGC       PPDB Motif GCCCA PLACE Motif

AtREG361 AATGGGCC      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354   ATGGGCCT     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG359     GGGCCTTT   PPDB Motif GCCCA PLACE Motif GGGCC

AtREG467      GGCCTTTA PPDB Motif PLACE Motif

AtREG639       GCCTTTAA PPDB Motif AAACG(C/G) PLACE Motif