PlantPromoterDB promoter information of AT1G04930.1

Summary of Gene (AT1G04930.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G04930 TAIR NCBI
Gene model	AT1G04930.1
Description	hydroxyproline-rich glycoprotein family protein; LOCATED IN: chloroplast; EXPRESSED IN: 14 plant structures; EXPRESSED DURING: 4 anthesis, F mature embryo stage, petal differentiation and expansion stage, D bilateral stage, E expanded cotyledon stage; BEST Arabidopsis thaliana protein match is: proline-rich family protein (TAIR:AT2G32840.1); Has 1563 Blast hits to 1268 proteins in 183 species: Archae - 0; Bacteria - 127; Metazoa - 510; Fungi - 165; Plants - 332; Viruses - 182; Other Eukaryotes - 247 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 1399988-1398789)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G04930.1 5'->3' (-) Promoter sequence AT1G04940.1 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 AT1G04930.1

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 T clone - 1399042 -54

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`T`	clone	-	1399042	-54

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 AATACCCTCAGGCCCAGATCGGCCCAAAA - 1399126 1399154 -138 -166

AtREG567 AATACCCT                      PPDB Motif ACCCT PLACE Motif

AtREG374        TCAGGCCC               PPDB Motif GCCCA PLACE Motif GGGCC

AtREG370         CAGGCCCA              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410          AGGCCCAG             PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG397           GGCCCAGA            PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG555                  ATCGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG393                   TCGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414                    CGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG373                     GGCCCAAA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG529                      GCCCAAAA PPDB Motif GCCCA PLACE Motif

REG CCCAATAA - 1399205 1399212 -217 -224

AtREG417 CCCAATAA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AATACCCTCAGGCCCAGATCGGCCCAAAA`		-	1399126	1399154	-138	-166
	AtREG567	`AATACCCT`		PPDB Motif	`ACCCT`	PLACE Motif
	AtREG374	`TCAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG370	`CAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG410	`AGGCCCAG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG397	`GGCCCAGA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG555	`ATCGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG393	`TCGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG414	`CGGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG373	`GGCCCAAA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG529	`GCCCAAAA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CCCAATAA`		-	1399205	1399212	-217	-224
	AtREG417	`CCCAATAA`		PPDB Motif	`GCCCA`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 13 + 1399235 AT1G04940.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	13	+	1399235	AT1G04940.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 1399211 AT1G04940.1

TSS clone A clone + 1399228 AT1G04940.1

TSS clone G clone + 1399236 AT1G04940.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	1399211	AT1G04940.1
TSS clone	`A`	clone	+	1399228	AT1G04940.1
TSS clone	`G`	clone	+	1399236	AT1G04940.1

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 CTCTTCTTCTT + 1399272 1399282 AT1G04940.1

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	`CTCTTCTTCTT`	+	1399272	1399282	AT1G04940.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG ACCGTTAG + 1398948 1398955 AT1G04940.1

AtREG603 ACCGTTAG PPDB Motif PLACE Motif YAACKG, CNGTTR

REG ACGGTTTAA + 1399078 1399086 AT1G04940.1

AtREG652 ACGGTTTA PPDB Motif PLACE Motif

AtREG473 CGGTTTAA PPDB Motif AACCG(G/A) PLACE Motif

REG TTTTGGGCCGATCTGGGCCTGAGGGTATT + 1399126 1399154 AT1G04940.1

AtREG529 TTTTGGGC                      PPDB Motif GCCCA PLACE Motif

AtREG373 TTTGGGCC                     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG414   TTGGGCCG                    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG393    TGGGCCGA                   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG555     GGGCCGAT                  PPDB Motif GCCCA PLACE Motif GGGCC

AtREG397            TCTGGGCC           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410             CTGGGCCT          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG370              TGGGCCTG         PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG374               GGGCCTGA        PPDB Motif GCCCA PLACE Motif GGGCC

AtREG567                      AGGGTATT PPDB Motif ACCCT PLACE Motif