PlantPromoterDB promoter information of AT5G55220

Summary of Gene (AT5G55220)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G55220 TAIR NCBI
Gene model	AT5G55220
Description	trigger factor type chaperone family protein; FUNCTIONS IN: peptidyl-prolyl cis-trans isomerase activity; INVOLVED IN: protein folding, protein transport; LOCATED IN: chloroplast, chloroplast stroma, chloroplast envelope; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Trigger factor, C-terminal, bacterial (InterPro:IPR008880), Trigger factor, ribosome-binding, bacterial (InterPro:IPR008881), Peptidyl-prolyl cis-trans isomerase, FKBP-type (InterPro:IPR001179); Has 4453 Blast hits to 4437 proteins in 1318 species: Archae - 0; Bacteria - 2754; Metazoa - 39; Fungi - 3; Plants - 24; Viruses - 2; Other Eukaryotes - 1631 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 22396677-22397876)

`Genome position from initiation codon` `AT5G55220.1 TSS from cDNA TSS information AT5G55220 5'->3' (+) Promoter sequence AT5G55210.1 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 AT5G55220

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 2 + 22397641 -36

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	2	+	22397641	-36

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone + 22397616 -61

TSS clone T clone + 22397635 -42

TSS clone T clone + 22397639 -38

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	22397616	-61
TSS clone	`T`	clone	+	22397635	-42
TSS clone	`T`	clone	+	22397639	-38

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 AAACGCTGCGTTTTGA + 22397431 22397446 -246 -231

AtREG626 AAACGCTG         PPDB Motif AAACG(C/G) PLACE Motif

AtREG369   ACGCTGCG       PPDB Motif PLACE Motif

AtREG585        GCGTTTTG PPDB Motif AAACG(C/G) PLACE Motif CAAAACGC

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

REG TCAAAACGCGGCGTTTTA + 22397489 22397506 -188 -171

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

AtREG585 CAAAACGC          PPDB Motif AAACG(C/G) PLACE Motif CAAAACGC

AtREG566   AAAACGCG         PPDB Motif AAACG(C/G) PLACE Motif

AtREG650          GGCGTTTT PPDB Motif AAACG(C/G) PLACE Motif

AtREG564           GCGTTTTA PPDB Motif AAACG(C/G) PLACE Motif

REG GCGTTTTA + 22397537 22397544 -140 -133

AtREG564 GCGTTTTA PPDB Motif AAACG(C/G) PLACE Motif

REG CGCAGCGTTTTA + 22397571 22397582 -106 -95

AtREG369 CGCAGCGT     PPDB Motif PLACE Motif

AtREG626   CAGCGTTT   PPDB Motif AAACG(C/G) PLACE Motif

AtREG564     GCGTTTTA PPDB Motif AAACG(C/G) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAACGCTGCGTTTTGA`		+	22397431	22397446	-246	-231
	AtREG626	`AAACGCTG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG369	`ACGCTGCG`		PPDB Motif		PLACE Motif
	AtREG585	`GCGTTTTG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif	`CAAAACGC`
	AtREG653	`CGTTTTGA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`TCAAAACGCGGCGTTTTA`		+	22397489	22397506	-188	-171
	AtREG653	`TCAAAACG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG585	`CAAAACGC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif	`CAAAACGC`
	AtREG566	`AAAACGCG`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG650	`GGCGTTTT`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG564	`GCGTTTTA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`GCGTTTTA`		+	22397537	22397544	-140	-133
	AtREG564	`GCGTTTTA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`CGCAGCGTTTTA`		+	22397571	22397582	-106	-95
	AtREG369	`CGCAGCGT`		PPDB Motif		PLACE Motif
	AtREG626	`CAGCGTTT`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG564	`GCGTTTTA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 8 - 22397382 AT5G55210.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	8	-	22397382	AT5G55210.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone - 22397446 AT5G55210.1

TSS clone G clone - 22397387 AT5G55210.1

TSS clone A clone - 22397386 AT5G55210.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	-	22397446	AT5G55210.1
TSS clone	`G`	clone	-	22397387	AT5G55210.1
TSS clone	`A`	clone	-	22397386	AT5G55210.1

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 TCAAAACGCAGCGTTT - 22397431 22397446 AT5G55210.1

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

AtREG585 CAAAACGC        PPDB Motif AAACG(C/G) PLACE Motif CAAAACGC

AtREG369       CGCAGCGT   PPDB Motif PLACE Motif

AtREG626         CAGCGTTT PPDB Motif AAACG(C/G) PLACE Motif

REG TAAAACGCCGCGTTTTGA - 22397489 22397506 AT5G55210.1

AtREG564 TAAAACGC           PPDB Motif AAACG(C/G) PLACE Motif

AtREG650 AAAACGCC          PPDB Motif AAACG(C/G) PLACE Motif

AtREG566         CGCGTTTT   PPDB Motif AAACG(C/G) PLACE Motif

AtREG585          GCGTTTTG PPDB Motif AAACG(C/G) PLACE Motif CAAAACGC

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

REG TAAAACGC - 22397537 22397544 AT5G55210.1

AtREG564 TAAAACGC PPDB Motif AAACG(C/G) PLACE Motif

REG TAAAACGCTGCG - 22397571 22397582 AT5G55210.1

AtREG564 TAAAACGC     PPDB Motif AAACG(C/G) PLACE Motif

AtREG626   AAACGCTG   PPDB Motif AAACG(C/G) PLACE Motif

AtREG369     ACGCTGCG PPDB Motif PLACE Motif