PlantPromoterDB promoter information of AT5G48330

Summary of Gene (AT5G48330)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G48330 TAIR NCBI
Gene model	AT5G48330
Description	regulator of chromosome condensation (RCC1) family protein; FUNCTIONS IN: binding; INVOLVED IN: biological_process unknown; EXPRESSED IN: 17 plant structures; EXPRESSED DURING: 8 growth stages; CONTAINS InterPro DOMAIN/s: Regulator of chromosome condensation/beta-lactamase-inhibitor protein II (InterPro:IPR009091), Regulator of chromosome condensation, RCC1 (InterPro:IPR000408); BEST Arabidopsis thaliana protein match is: UVR8 (UVB-RESISTANCE 8); chromatin binding / guanyl-nucleotide exchange factor (TAIR:AT5G63860.1); Has 15456 Blast hits to 4421 proteins in 299 species: Archae - 76; Bacteria - 1677; Metazoa - 5981; Fungi - 696; Plants - 1366; Viruses - 2; Other Eukaryotes - 5658 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 19586939-19588138)

`Genome position from initiation codon` `AT5G48330.1 AT5G48330.2 AT5G48335.1 TSS from cDNA TSS information AT5G48330 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 AT5G48330

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 A clone + 19585907 -82

TSS clone peak A clone + 19585908 -81

TSS clone A clone + 19585936 -53

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	+	19585907	-82
TSS clone peak	`A`	clone	+	19585908	-81
TSS clone	`A`	clone	+	19585936	-53

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 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 G 8 + 19588026 AT5G48335.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	8	+	19588026	AT5G48335.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone + 19587993 AT5G48335.1

TSS clone C clone + 19588009 AT5G48335.1

TSS clone G clone + 19588024 AT5G48335.1

TSS clone G clone + 19588026 AT5G48335.1

TSS clone A clone + 19588060 AT5G48335.1

TSS clone G clone + 19588075 AT5G48335.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	+	19587993	AT5G48335.1
TSS clone	`C`	clone	+	19588009	AT5G48335.1
TSS clone	`G`	clone	+	19588024	AT5G48335.1
TSS clone	`G`	clone	+	19588026	AT5G48335.1
TSS clone	`A`	clone	+	19588060	AT5G48335.1
TSS clone	`G`	clone	+	19588075	AT5G48335.1

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 CCCAATAT + 19587735 19587742 AT5G48335.1

AtREG509 CCCAATAT PPDB Motif PLACE Motif

REG TTTCCGGTTCGGT + 19587943 19587955 AT5G48335.1

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

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

AtREG451      GGTTCGGT PPDB Motif PLACE Motif

REG TTCGGTTT + 19587966 19587973 AT5G48335.1

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