PlantPromoterDB promoter information of AT5G18110.1

Summary of Gene (AT5G18110.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G18110 TAIR NCBI
Gene model	AT5G18110.1
Description	NOVEL CAP-BINDING PROTEIN (NCBP); FUNCTIONS IN: RNA binding, translation initiation factor activity; INVOLVED IN: translational initiation; LOCATED IN: cytoplasm; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Eukaryotic translation initiation factor 4E (eIF-4E) (InterPro:IPR001040); BEST Arabidopsis thaliana protein match is: EIF4E (EUKARYOTIC TRANSLATION INITATION FACTOR 4E); RNA binding / RNA cap binding / protein binding / translation initiation factor (TAIR:AT4G18040.1); Has 1298 Blast hits to 1298 proteins in 204 species: Archae - 0; Bacteria - 0; Metazoa - 608; Fungi - 226; Plants - 212; Viruses - 0; Other Eukaryotes - 252 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 5991588-5990389)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G18110.1 5'->3' (-) Promoter sequence AT5G18120.1 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 AT5G18110.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 26 - 5990681 -93

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	26	-	5990681	-93

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 5990681 -93

TSS clone G clone - 5990680 -92

TSS clone T clone - 5990676 -88

TSS clone T clone - 5990660 -72

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	5990681	-93
TSS clone	`G`	clone	-	5990680	-92
TSS clone	`T`	clone	-	5990676	-88
TSS clone	`T`	clone	-	5990660	-72

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 TTTCTTCTCTCCTCCTCTTTCTTCTTCCT - 5990647 5990675 -59 -87

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	`TTTCTTCTCTCCTCCTCTTTCTTCTTCCT`	-	5990647	5990675	-59	-87
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 CCCAATAAGGCCCATAT - 5990741 5990757 -153 -169

AtREG417 CCCAATAA          PPDB Motif GCCCA PLACE Motif

AtREG611 CCAATAAG         PPDB Motif PLACE Motif

AtREG425     ATAAGGCC      PPDB Motif AACCG(G/A) PLACE Motif

AtREG351      TAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353       AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354        AGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364         GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG432          GCCCATAT PPDB Motif GCCCA PLACE Motif

REG CTAAGGCCCATTTA - 5990763 5990776 -175 -188

AtREG577 CTAAGGCC       PPDB Motif PLACE Motif

AtREG351 TAAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361     GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG386      GCCCATTT PPDB Motif GCCCA PLACE Motif

AtREG443       CCCATTTA PPDB Motif GCCCA PLACE Motif

REG TTCCGGTT - 5990904 5990911 -316 -323

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

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CCCAATAAGGCCCATAT`		-	5990741	5990757	-153	-169
	AtREG417	`CCCAATAA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG611	`CCAATAAG`		PPDB Motif		PLACE Motif
	AtREG425	`ATAAGGCC`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG351	`TAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG364	`GGCCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG432	`GCCCATAT`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CTAAGGCCCATTTA`		-	5990763	5990776	-175	-188
	AtREG577	`CTAAGGCC`		PPDB Motif		PLACE Motif
	AtREG351	`TAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG361	`GGCCCATT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG386	`GCCCATTT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG443	`CCCATTTA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TTCCGGTT`		-	5990904	5990911	-316	-323
	AtREG534	`TTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 4 + 5991056 AT5G18120.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	4	+	5991056	AT5G18120.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone T clone + 5991057 AT5G18120.1

TSS clone A clone + 5991098 AT5G18120.1

TSS clone A clone + 5991099 AT5G18120.1

TSS clone T clone + 5991140 AT5G18120.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`T`	clone	+	5991057	AT5G18120.1
TSS clone	`A`	clone	+	5991098	AT5G18120.1
TSS clone	`A`	clone	+	5991099	AT5G18120.1
TSS clone	`T`	clone	+	5991140	AT5G18120.1

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 TAAATGGGCCTTAG + 5990763 5990776 AT5G18120.1

AtREG443 TAAATGGG       PPDB Motif GCCCA PLACE Motif

AtREG386 AAATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    ATGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353     TGGGCCTT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG351      GGGCCTTA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG577       GGCCTTAG PPDB Motif PLACE Motif

REG AACCGGAA + 5990904 5990911 AT5G18120.1

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