PlantPromoterDB promoter information of AT4G35850.1

Summary of Gene (AT4G35850.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G35850 TAIR NCBI
Gene model	AT4G35850.1
Description	pentatricopeptide (PPR) repeat-containing protein; FUNCTIONS IN: molecular_function unknown; LOCATED IN: mitochondrion; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pentatricopeptide repeat (InterPro:IPR002885); BEST Arabidopsis thaliana protein match is: pentatricopeptide (PPR) repeat-containing protein (TAIR:AT2G02150.1); Has 6373 Blast hits to 2522 proteins in 127 species: Archae - 1; Bacteria - 4; Metazoa - 104; Fungi - 77; Plants - 5853; Viruses - 0; Other Eukaryotes - 334 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 16982638-16983837)

`Genome position from initiation codon` `TSS from cDNA TSS information AT4G35850.1 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 AT4G35850.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 13 + 16983532 -106

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	13	+	16983532	-106

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 16983531 -107

TSS clone T clone + 16983533 -105

TSS clone G clone + 16983561 -77

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	16983531	-107
TSS clone	`T`	clone	+	16983533	-105
TSS clone	`G`	clone	+	16983561	-77

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 TTCCTCTCTCTC + 16983540 16983551 -98 -87

Y Patch CTCTCTCC + 16983553 16983560 -85 -78

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	`TTCCTCTCTCTC`	+	16983540	16983551	-98	-87
Y Patch	`CTCTCTCC`	+	16983553	16983560	-85	-78
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 GTACACGTGGCAGCCACGTG + 16983289 16983308 -349 -330

AtREG562 GTACACGT             ABA, Auxin PPDB Motif ACGT PLACE Motif ACGT, ACGTG

AtREG453 TACACGTG            ABA, DREB1Aox PPDB Motif ACGT PLACE Motif ACGT, ACGTG, ACACNNG

AtREG382   ACACGTGG           ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, CACGTG, ACACNNG

AtREG367    CACGTGGC GCCACGTG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC

AtREG379     ACGTGGCA         ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, ACGTGKC

AtREG468      CGTGGCAG        ABA PPDB Motif PLACE Motif GCCAC

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

REG AGCCACGTG + 16983320 16983328 -318 -310

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

AtREG367 GCCACGTG ABA PPDB Motif ACGT PLACE Motif ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC

REG TAAGCCCAATAA + 16983354 16983365 -284 -273

AtREG426 TAAGCCCA     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407 AAGCCCAA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402   AGCCCAAT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG355    GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG417     CCCAATAA PPDB Motif GCCCA PLACE Motif

REG CAAGGCCCATA + 16983371 16983381 -267 -257

AtREG398 CAAGGCCC    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

REG CAAACCGGTTAA + 16983420 16983431 -218 -207

AtREG496 CAAACCGG     PPDB Motif AACCG(G/A) PLACE Motif

AtREG436 AAACCGGT    PPDB Motif AACCG(G/A) PLACE Motif

AtREG503    ACCGGTTA PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

AtREG501     CCGGTTAA PPDB Motif AACCG(G/A) PLACE Motif CNGTTR

REG TTTCCGGTTTAT + 16983453 16983464 -185 -174

AtREG644 TTTCCGGT     PPDB Motif AACCG(G/A) PLACE Motif

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

AtREG521   TCCGGTTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG412    CCGGTTTA PPDB Motif AACCG(G/A) PLACE Motif

AtREG598     CGGTTTAT PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`GTACACGTGGCAGCCACGTG`		+	16983289	16983308	-349	-330
	AtREG562	`GTACACGT`	ABA, Auxin	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG`
	AtREG453	`TACACGTG`	ABA, DREB1Aox	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, ACACNNG`
	AtREG382	`ACACGTGG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, CACGTG, ACACNNG`
	AtREG367	`CACGTGGC GCCACGTG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC`
	AtREG379	`ACGTGGCA`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG468	`CGTGGCAG`	ABA	PPDB Motif		PLACE Motif	`GCCAC`
	AtREG450	`AGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
REG	`AGCCACGTG`		+	16983320	16983328	-318	-310
	AtREG450	`AGCCACGT`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, ACGTGKC`
	AtREG367	`GCCACGTG`	ABA	PPDB Motif	`ACGT`	PLACE Motif	`ACGT, ACGTG, GCCAC, CACGTG, ACGTGKC, CACGTGGC`
REG	`TAAGCCCAATAA`		+	16983354	16983365	-284	-273
	AtREG426	`TAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG402	`AGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG355	`GCCCAATA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG417	`CCCAATAA`		PPDB Motif	`GCCCA`	PLACE Motif
REG	`CAAGGCCCATA`		+	16983371	16983381	-267	-257
	AtREG398	`CAAGGCCC`		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`
REG	`CAAACCGGTTAA`		+	16983420	16983431	-218	-207
	AtREG496	`CAAACCGG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG436	`AAACCGGT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG503	`ACCGGTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif	`CNGTTR`
	AtREG501	`CCGGTTAA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif	`CNGTTR`
REG	`TTTCCGGTTTAT`		+	16983453	16983464	-185	-174
	AtREG644	`TTTCCGGT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG534	`TTCCGGTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG521	`TCCGGTTT`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG412	`CCGGTTTA`		PPDB Motif	`AACCG(G/A)`	PLACE Motif
	AtREG598	`CGGTTTAT`		PPDB Motif	`AACCG(G/A)`	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