PlantPromoterDB promoter information of AT5G58640.1

Summary of Gene (AT5G58640.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G58640 TAIR NCBI
Gene model	AT5G58640.1
Description	selenoprotein-related; FUNCTIONS IN: selenium binding; INVOLVED IN: cell redox homeostasis; LOCATED IN: endoplasmic reticulum, plasma membrane; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: SelT/selW/selH selenoprotein (InterPro:IPR011893); BEST Arabidopsis thaliana protein match is: SELT (SELT-LIKE PROTEIN PRECURSOR); selenium binding (TAIR:AT3G47300.1); Has 171 Blast hits to 171 proteins in 52 species: Archae - 0; Bacteria - 0; Metazoa - 119; Fungi - 0; Plants - 43; Viruses - 0; Other Eukaryotes - 9 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 23696996-23698195)

`Genome position from initiation codon` `AT5G58640.2 TSS from cDNA TSS information AT5G58640.1 5'->3' (+) Promoter sequence AT5G58630.1 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 AT5G58640.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 4 + 23697891 -105

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	4	+	23697891	-105

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 23697888 -108

TSS clone T clone + 23697889 -107

TSS clone G clone + 23697891 -105

TSS clone T clone + 23697897 -99

TSS clone C clone + 23697931 -65

TSS clone G clone + 23697942 -54

TSS clone T clone + 23697943 -53

TSS clone G clone + 23697955 -41

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	23697888	-108
TSS clone	`T`	clone	+	23697889	-107
TSS clone	`G`	clone	+	23697891	-105
TSS clone	`T`	clone	+	23697897	-99
TSS clone	`C`	clone	+	23697931	-65
TSS clone	`G`	clone	+	23697942	-54
TSS clone	`T`	clone	+	23697943	-53
TSS clone	`G`	clone	+	23697955	-41

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 CGTCTTCTCC + 23697905 23697914 -91 -82

Y Patch CTTCTTCC + 23697931 23697938 -65 -58

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	`CGTCTTCTCC`	+	23697905	23697914	-91	-82
Y Patch	`CTTCTTCC`	+	23697931	23697938	-65	-58
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 TTGAACCG + 23697676 23697683 -320 -313

AtREG640 TTGAACCG PPDB Motif AACCG(G/A) PLACE Motif

REG ATTTGGGCCGTTTTGA + 23697716 23697731 -280 -265

AtREG421 ATTTGGGC         PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC        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

AtREG377     GGGCCGTT     PPDB Motif GCCCA, AAACG(C/G) PLACE Motif GGGCC

AtREG531       GCCGTTTT   PPDB Motif AAACG(C/G) PLACE Motif

AtREG653         CGTTTTGA PPDB Motif AAACG(C/G) PLACE Motif

REG AGTGGGCTTTAT + 23697740 23697751 -256 -245

AtREG510 AGTGGGCT     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG518 GTGGGCTT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376   TGGGCTTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG365    GGGCTTTA PPDB Motif GCCCA PLACE Motif

AtREG601     GGCTTTAT PPDB Motif PLACE Motif

REG GGGGTATTT + 23697804 23697812 -192 -184

AtREG614 GGGGTATT PPDB Motif ACCCCT PLACE Motif

AtREG602 GGGTATTT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TTGAACCG`		+	23697676	23697683	-320	-313
	AtREG640	`TTGAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`ATTTGGGCCGTTTTGA`		+	23697716	23697731	-280	-265
	AtREG421	`ATTTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG373	`TTTGGGCC`		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`
	AtREG377	`GGGCCGTT`		PPDB Motif	`GCCCA, AAACG(C/G)`	PLACE Motif	`GGGCC`
	AtREG531	`GCCGTTTT`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG653	`CGTTTTGA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`AGTGGGCTTTAT`		+	23697740	23697751	-256	-245
	AtREG510	`AGTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG518	`GTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG376	`TGGGCTTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG365	`GGGCTTTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG601	`GGCTTTAT`		PPDB Motif		PLACE Motif
REG	`GGGGTATTT`		+	23697804	23697812	-192	-184
	AtREG614	`GGGGTATT`		PPDB Motif	`ACCCCT`	PLACE Motif
	AtREG602	`GGGTATTT`		PPDB Motif		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 T clone - 23697452 AT5G58630.1

TSS clone peak C clone - 23697451 AT5G58630.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`T`	clone	-	23697452	AT5G58630.1
TSS clone peak	`C`	clone	-	23697451	AT5G58630.1

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 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 None None None