PlantPromoterDB promoter information of AT2G42220

Summary of Gene (AT2G42220)

Organism	Arabidopsis thaliana
Chromosome	2
Locus	AT2G42220 TAIR NCBI
Gene model	AT2G42220
Description	rhodanese-like domain-containing protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast thylakoid membrane, chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Rhodanese-like (InterPro:IPR001763); BEST Arabidopsis thaliana protein match is: rhodanese-like domain-containing protein (TAIR:AT3G08920.1); Has 686 Blast hits to 686 proteins in 102 species: Archae - 12; Bacteria - 169; Metazoa - 1; Fungi - 0; Plants - 114; Viruses - 0; Other Eukaryotes - 390 (source: NCBI BLink).

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Overview

Focused view (chromosome 2: 17590155-17591354)

`Genome position from initiation codon` `AT2G42210.1 AT2G42210.2 AT2G42210.3 AT2G42210.4 TSS from cDNA TSS information AT2G42220 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 AT2G42220

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 30 + 17592089 -16

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	30	+	17592089	-16

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 17592057 -48

TSS clone C clone + 17592064 -41

TSS clone C clone + 17592075 -30

TSS clone C clone + 17592086 -19

TSS clone A clone + 17592089 -16

TSS clone C clone + 17592100 -5

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	17592057	-48
TSS clone	`C`	clone	+	17592064	-41
TSS clone	`C`	clone	+	17592075	-30
TSS clone	`C`	clone	+	17592086	-19
TSS clone	`A`	clone	+	17592089	-16
TSS clone	`C`	clone	+	17592100	-5

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 TACGTGGCAAT + 17591984 17591994 -121 -111

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

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

AtREG452   CGTGGCAA PPDB Motif PLACE Motif GCCAC

AtREG654    GTGGCAAT PPDB Motif PLACE Motif GCCAC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TACGTGGCAAT`		+	17591984	17591994	-121	-111
	AtREG413	`TACGTGGC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG379	`ACGTGGCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG452	`CGTGGCAA`		PPDB Motif		PLACE Motif	`GCCAC`
	AtREG654	`GTGGCAAT`		PPDB Motif		PLACE Motif	`GCCAC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 10 + 17590212 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	10	+	17590212	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 17590213 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

TSS clone A clone + 17590223 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

TSS clone C clone + 17590241 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

TSS clone T clone + 17590244 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

TSS clone T clone + 17590247 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

TSS clone G clone + 17590276 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	17590213	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4
TSS clone	`A`	clone	+	17590223	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4
TSS clone	`C`	clone	+	17590241	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4
TSS clone	`T`	clone	+	17590244	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4
TSS clone	`T`	clone	+	17590247	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4
TSS clone	`G`	clone	+	17590276	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

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 CTTTCTCT + 17590165 17590172 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

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	`CTTTCTCT`	+	17590165	17590172	AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TAATTGGGCTTT + 17590157 17590168 AT2G42210.1, AT2G42210.2, AT2G42210.3, AT2G42210.4

AtREG600 TAATTGGG     PPDB Motif GCCCA PLACE Motif

AtREG418 AATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG402   ATTGGGCT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407    TTGGGCTT PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376     TGGGCTTT PPDB Motif GCCCA PLACE Motif TGGGCY