PlantPromoterDB promoter information of AT4G29390.1

Summary of Gene (AT4G29390.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G29390 TAIR NCBI
Gene model	AT4G29390.1
Description	40S ribosomal protein S30 (RPS30B); FUNCTIONS IN: structural constituent of ribosome; INVOLVED IN: translation; LOCATED IN: cytosolic small ribosomal subunit, ribosome, nucleolus; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein S30 (InterPro:IPR006846); BEST Arabidopsis thaliana protein match is: 40S ribosomal protein S30 (RPS30C) (TAIR:AT5G56670.1); Has 487 Blast hits to 487 proteins in 186 species: Archae - 2; Bacteria - 0; Metazoa - 223; Fungi - 90; Plants - 56; Viruses - 1; Other Eukaryotes - 115 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 14466902-14465703)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G29390.1 5'->3' (-) Promoter sequence AT4G29400.1 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 AT4G29390.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 47 - 14465983 -81

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	47	-	14465983	-81

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 14465989 -87

TSS clone T clone - 14465984 -82

TSS clone G clone - 14465983 -81

TSS clone A clone - 14465982 -80

TSS clone G clone - 14465981 -79

TSS clone T clone - 14465966 -64

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	14465989	-87
TSS clone	`T`	clone	-	14465984	-82
TSS clone	`G`	clone	-	14465983	-81
TSS clone	`A`	clone	-	14465982	-80
TSS clone	`G`	clone	-	14465981	-79
TSS clone	`T`	clone	-	14465966	-64

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 CTAATGGGCCGTA - 14466039 14466051 -137 -149

AtREG558 CTAATGGG      PPDB Motif GCCCA PLACE Motif

AtREG357 TAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361   AATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380    ATGGGCCG   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG368     TGGGCCGT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG499      GGGCCGTA PPDB Motif GCCCA PLACE Motif GGGCC

REG TATAGGCCCATTAAG - 14466058 14466072 -156 -170

AtREG487 TATAGGCC        PPDB Motif PLACE Motif

AtREG362 ATAGGCCC       PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358   TAGGCCCA      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

AtREG357      GCCCATTA   PPDB Motif GCCCA PLACE Motif

AtREG396       CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG604        CCATTAAG PPDB Motif PLACE Motif TTAATGG

REG GCTGACGTGGCT - 14466191 14466202 -289 -300

AtREG515 GCTGACGT     SA PPDB Motif ACGT PLACE Motif ACGT

AtREG440 CTGACGTG    ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG419   TGACGTGG   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG388    GACGTGGC PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG450     ACGTGGCT ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

REG CTAACGGT - 14466228 14466235 -326 -333

AtREG603 CTAACGGT PPDB Motif PLACE Motif YAACKG, CNGTTR

REG CTAATGGG - 14466273 14466280 -371 -378

AtREG558 CTAATGGG PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CTAATGGGCCGTA`		-	14466039	14466051	-137	-149
	AtREG558	`CTAATGGG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG357	`TAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG380	`ATGGGCCG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG368	`TGGGCCGT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG499	`GGGCCGTA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`TATAGGCCCATTAAG`		-	14466058	14466072	-156	-170
	AtREG487	`TATAGGCC`		PPDB Motif		PLACE Motif
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		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`
	AtREG357	`GCCCATTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG396	`CCCATTAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TTAATGG`
	AtREG604	`CCATTAAG`		PPDB Motif		PLACE Motif	`TTAATGG`
REG	`GCTGACGTGGCT`		-	14466191	14466202	-289	-300
	AtREG515	`GCTGACGT`	SA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
	AtREG440	`CTGACGTG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG419	`TGACGTGG`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, TGACGTGG, CCACGTCA`
	AtREG388	`GACGTGGC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG450	`ACGTGGCT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
REG	`CTAACGGT`		-	14466228	14466235	-326	-333
	AtREG603	`CTAACGGT`		PPDB Motif		PLACE Motif	`YAACKG, CNGTTR`
REG	`CTAATGGG`		-	14466273	14466280	-371	-378
	AtREG558	`CTAATGGG`		PPDB Motif	`GCCCA`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 4 + 14466298 AT4G29400.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	4	+	14466298	AT4G29400.1

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 TCTTCTCT + 14466290 14466297 AT4G29400.1

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	`TCTTCTCT`	+	14466290	14466297	AT4G29400.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TACGGCCCATTAG + 14466039 14466051 AT4G29400.1

AtREG499 TACGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG368 ACGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380   CGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG357     GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG558      CCCATTAG PPDB Motif GCCCA PLACE Motif

REG CTTAATGGGCCTATA + 14466058 14466072 AT4G29400.1

AtREG604 CTTAATGG        PPDB Motif PLACE Motif TTAATGG

AtREG396 TTAATGGG       PPDB Motif GCCCA PLACE Motif TTAATGG

AtREG357   TAATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG361    AATGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354     ATGGGCCT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358      TGGGCCTA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG362       GGGCCTAT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG487        GGCCTATA PPDB Motif PLACE Motif

REG AGCCACGTCAGC + 14466191 14466202 AT4G29400.1

AtREG450 AGCCACGT     ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG388 GCCACGTC    PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG419   CCACGTCA   PPDB Motif ACGT PLACE Motif ACGT, ACGTG, TGACGTGG, CCACGTCA

AtREG440    CACGTCAG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG515     ACGTCAGC SA PPDB Motif ACGT PLACE Motif ACGT

REG ACCGTTAG + 14466228 14466235 AT4G29400.1

AtREG603 ACCGTTAG PPDB Motif PLACE Motif YAACKG, CNGTTR