PlantPromoterDB promoter information of AT5G11010.3

Summary of Gene (AT5G11010.3)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G11010 TAIR NCBI
Gene model	AT5G11010.3
Description	pre-mRNA cleavage complex-related; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pre-mRNA cleavage complex II Clp1 (InterPro:IPR010655), NUC156 (InterPro:IPR012581); BEST Arabidopsis thaliana protein match is: CLPS3 (CLP-SIMILAR PROTEIN 3); binding (TAIR:AT3G04680.2); Has 423 Blast hits to 419 proteins in 168 species: Archae - 38; Bacteria - 4; Metazoa - 169; Fungi - 96; Plants - 49; Viruses - 0; Other Eukaryotes - 67 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 3483176-3484375)

`Genome position from initiation codon` `AT5G11010.1 AT5G11010.2 TSS from cDNA TSS information AT5G11010.3 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 AT5G11010.3

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 peak G clone + 3483742 -434

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`G`	clone	+	3483742	-434

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 TTCCCTCT + 3483743 3483750 -433 -426

Y Patch CTTCTCCTCT + 3483772 3483781 -404 -395

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	`TTCCCTCT`	+	3483743	3483750	-433	-426
Y Patch	`CTTCTCCTCT`	+	3483772	3483781	-404	-395
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 ATTGCCAC + 3483434 3483441 -742 -735

AtREG654 ATTGCCAC PPDB Motif PLACE Motif GCCAC

REG TGTCGTTTC + 3483454 3483462 -722 -714

AtREG569 TGTCGTTT PPDB Motif PLACE Motif

AtREG576 GTCGTTTC PPDB Motif PLACE Motif

REG TTTCCGGTTCG + 3483607 3483617 -569 -559

AtREG644 TTTCCGGT    PPDB Motif AACCG(G/A) PLACE Motif

AtREG534 TTCCGGTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG579   TCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

AtREG423    CCGGTTCG PPDB Motif AACCG(G/A) PLACE Motif

REG ACCGGTTTT + 3483645 3483653 -531 -523

AtREG436 ACCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

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

REG TTCCGGTTCGGTTT + 3483688 3483701 -488 -475

AtREG534 TTCCGGTT       PPDB Motif AACCG(G/A) PLACE Motif

AtREG579 TCCGGTTC      PPDB Motif AACCG(G/A) PLACE Motif

AtREG423   CCGGTTCG     PPDB Motif AACCG(G/A) PLACE Motif

AtREG456    CGGTTCGG    PPDB Motif AACCG(G/A) PLACE Motif

AtREG451     GGTTCGGT   PPDB Motif PLACE Motif

AtREG556      GTTCGGTT PPDB Motif AACCG(G/A) PLACE Motif

AtREG568       TTCGGTTT PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATTGCCAC`		+	3483434	3483441	-742	-735
	AtREG654	`ATTGCCAC`		PPDB Motif		PLACE Motif	`GCCAC`
REG	`TGTCGTTTC`		+	3483454	3483462	-722	-714
	AtREG569	`TGTCGTTT`		PPDB Motif		PLACE Motif
	AtREG576	`GTCGTTTC`		PPDB Motif		PLACE Motif
REG	`TTTCCGGTTCG`		+	3483607	3483617	-569	-559
	AtREG644	`TTTCCGGT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG534	`TTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG579	`TCCGGTTC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG423	`CCGGTTCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`ACCGGTTTT`		+	3483645	3483653	-531	-523
	AtREG436	`ACCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG542	`CCGGTTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
REG	`TTCCGGTTCGGTTT`		+	3483688	3483701	-488	-475
	AtREG534	`TTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG579	`TCCGGTTC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG423	`CCGGTTCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG456	`CGGTTCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG451	`GGTTCGGT`		PPDB Motif		PLACE Motif
	AtREG556	`GTTCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG568	`TTCGGTTT`		PPDB Motif	`AACCG(G/A)`	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

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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