PlantPromoterDB promoter information of AT3G16080.1

Summary of Gene (AT3G16080.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G16080 TAIR NCBI
Gene model	AT3G16080.1
Description	60S ribosomal protein L37 (RPL37C); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation, ribosome biogenesis; LOCATED IN: cytosolic large ribosomal subunit, ribosome; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein L37e, conserved site (InterPro:IPR018267), Ribosomal protein, zinc-binding (InterPro:IPR011332), Ribosomal protein L37e (InterPro:IPR001569), Ribosomal protein L37ae/L37e, core (InterPro:IPR011331); BEST Arabidopsis thaliana protein match is: 60S ribosomal protein L37 (RPL37B) (TAIR:AT1G52300.1); Has 707 Blast hits to 707 proteins in 247 species: Archae - 202; Bacteria - 0; Metazoa - 220; Fungi - 103; Plants - 72; Viruses - 0; Other Eukaryotes - 110 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 5453892-5455091)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G16080.1 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 AT3G16080.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 13 + 5454850 -42

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	13	+	5454850	-42

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 5454824 -68

TSS clone C clone + 5454843 -49

TSS clone G clone + 5454850 -42

TSS clone A clone + 5454851 -41

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	5454824	-68
TSS clone	`C`	clone	+	5454843	-49
TSS clone	`G`	clone	+	5454850	-42
TSS clone	`A`	clone	+	5454851	-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 GATATAAATA + 5454809 5454818 -83 -74

Y Patch CTTCTTCTTCTCT + 5454837 5454849 -55 -43

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	`GATATAAATA`	+	5454809	5454818	-83	-74
Y Patch	`CTTCTTCTTCTCT`	+	5454837	5454849	-55	-43
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 CTAAGGCC + 5454615 5454622 -277 -270

AtREG577 CTAAGGCC PPDB Motif PLACE Motif

REG CCAGGCCCATTTA + 5454645 5454657 -247 -235

AtREG619 CCAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370 CAGGCCCA     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 ATGGCCCATAA + 5454669 5454679 -223 -213

AtREG437 ATGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490 TGGCCCAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364   GGCCCATA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG394    GCCCATAA PPDB Motif GCCCA PLACE Motif

REG ATAATGGGC + 5454716 5454724 -176 -168

AtREG546 ATAATGGG PPDB Motif PLACE Motif

AtREG357 TAATGGGC PPDB Motif GCCCA PLACE Motif

REG TCAGGCCCACA + 5454745 5454755 -147 -137

AtREG374 TCAGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370 CAGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG482   AGGCCCAC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG612    GGCCCACA DREB1Aox PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG CAAAGGCCCATG + 5454764 5454775 -128 -117

AtREG656 CAAAGGCC     PPDB Motif PLACE Motif

AtREG359 AAAGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG504     GGCCCATG PPDB Motif GCCCA, CCATGG PLACE Motif GGGCC, TGGGCY

REG ACCCTAGA + 5454788 5454795 -104 -97

AtREG658 ACCCTAGA PPDB Motif ACCCT PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CTAAGGCC`		+	5454615	5454622	-277	-270
	AtREG577	`CTAAGGCC`		PPDB Motif		PLACE Motif
REG	`CCAGGCCCATTTA`		+	5454645	5454657	-247	-235
	AtREG619	`CCAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG370	`CAGGCCCA`		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	`ATGGCCCATAA`		+	5454669	5454679	-223	-213
	AtREG437	`ATGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`TGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG364	`GGCCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG394	`GCCCATAA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`ATAATGGGC`		+	5454716	5454724	-176	-168
	AtREG546	`ATAATGGG`		PPDB Motif		PLACE Motif
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`TCAGGCCCACA`		+	5454745	5454755	-147	-137
	AtREG374	`TCAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG370	`CAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG482	`AGGCCCAC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG612	`GGCCCACA`	DREB1Aox	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`CAAAGGCCCATG`		+	5454764	5454775	-128	-117
	AtREG656	`CAAAGGCC`		PPDB Motif		PLACE Motif
	AtREG359	`AAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG504	`GGCCCATG`		PPDB Motif	`GCCCA, CCATGG`	PLACE Motif	`GGGCC, TGGGCY`
REG	`ACCCTAGA`		+	5454788	5454795	-104	-97
	AtREG658	`ACCCTAGA`		PPDB Motif	`ACCCT`	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