PlantPromoterDB promoter information of AT3G05070.1

Summary of Gene (AT3G05070.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G05070 TAIR NCBI
Gene model	AT3G05070.1
Description	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: mRNA splicing factor, Cwf18 (InterPro:IPR013169); Has 221 Blast hits to 221 proteins in 113 species: Archae - 0; Bacteria - 0; Metazoa - 107; Fungi - 54; Plants - 17; Viruses - 9; Other Eukaryotes - 34 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 1415480-1416679)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G05070.1 5'->3' (+) Promoter sequence AT3G05060.1 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 AT3G05070.1

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 C clone + 1416148 -332

TSS clone peak A clone + 1416169 -311

TSS clone A clone + 1416170 -310

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`C`	clone	+	1416148	-332
TSS clone peak	`A`	clone	+	1416169	-311
TSS clone	`A`	clone	+	1416170	-310

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 TTCTCTTCC + 1416138 1416146 -342 -334

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	`TTCTCTTCC`	+	1416138	1416146	-342	-334
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 TAAAACGCC + 1416004 1416012 -476 -468

AtREG564 TAAAACGC PPDB Motif AAACG(C/G) PLACE Motif

AtREG650 AAAACGCC PPDB Motif AAACG(C/G) PLACE Motif

REG TAAGGGGTATTT + 1416021 1416032 -459 -448

AtREG636 TAAGGGGT     PPDB Motif ACCCCT PLACE Motif

AtREG614    GGGGTATT PPDB Motif ACCCCT PLACE Motif

AtREG602     GGGTATTT PPDB Motif PLACE Motif

REG TTAATGGGCCTGA + 1416068 1416080 -412 -400

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

AtREG370     TGGGCCTG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG374      GGGCCTGA PPDB Motif GCCCA PLACE Motif GGGCC

REG GGCCCGTT + 1416101 1416108 -379 -372

AtREG401 GGCCCGTT PPDB Motif AAACG(C/G), ACGGGC, CCAACGG PLACE Motif GGGCC

REG GGCGTTTTA + 1416126 1416134 -354 -346

AtREG650 GGCGTTTT PPDB Motif AAACG(C/G) PLACE Motif

AtREG564 GCGTTTTA PPDB Motif AAACG(C/G) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`TAAAACGCC`		+	1416004	1416012	-476	-468
	AtREG564	`TAAAACGC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG650	`AAAACGCC`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
REG	`TAAGGGGTATTT`		+	1416021	1416032	-459	-448
	AtREG636	`TAAGGGGT`		PPDB Motif	`ACCCCT`	PLACE Motif
	AtREG614	`GGGGTATT`		PPDB Motif	`ACCCCT`	PLACE Motif
	AtREG602	`GGGTATTT`		PPDB Motif		PLACE Motif
REG	`TTAATGGGCCTGA`		+	1416068	1416080	-412	-400
	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`
	AtREG370	`TGGGCCTG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG374	`GGGCCTGA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`GGCCCGTT`		+	1416101	1416108	-379	-372
	AtREG401	`GGCCCGTT`		PPDB Motif	`AAACG(C/G), ACGGGC, CCAACGG`	PLACE Motif	`GGGCC`
REG	`GGCGTTTTA`		+	1416126	1416134	-354	-346
	AtREG650	`GGCGTTTT`		PPDB Motif	`AAACG(C/G)`	PLACE Motif
	AtREG564	`GCGTTTTA`		PPDB Motif	`AAACG(C/G)`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 8 - 1415952 AT3G05060.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	8	-	1415952	AT3G05060.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 1415952 AT3G05060.1

TSS clone G clone - 1415944 AT3G05060.1

TSS clone T clone - 1415943 AT3G05060.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	1415952	AT3G05060.1
TSS clone	`G`	clone	-	1415944	AT3G05060.1
TSS clone	`T`	clone	-	1415943	AT3G05060.1

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TGCTATAA - 1415973 1415980 AT3G05060.1

Y Patch TCTTCTTCCTCTCTCTC - 1415911 1415927 AT3G05060.1

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	`TGCTATAA`	-	1415973	1415980	AT3G05060.1
Y Patch	`TCTTCTTCCTCTCTCTC`	-	1415911	1415927	AT3G05060.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG GGCGTTTTA - 1416004 1416012 AT3G05060.1

AtREG650 GGCGTTTT PPDB Motif AAACG(C/G) PLACE Motif

AtREG564 GCGTTTTA PPDB Motif AAACG(C/G) PLACE Motif

REG AAATACCCCTTA - 1416021 1416032 AT3G05060.1

AtREG602 AAATACCC     PPDB Motif PLACE Motif

AtREG614 AATACCCC    PPDB Motif ACCCCT PLACE Motif

AtREG636     ACCCCTTA PPDB Motif ACCCCT PLACE Motif

REG TCAGGCCCATTAA - 1416068 1416080 AT3G05060.1

AtREG374 TCAGGCCC      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

AtREG357     GCCCATTA PPDB Motif GCCCA PLACE Motif

AtREG396      CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

REG AACGGGCC - 1416101 1416108 AT3G05060.1

AtREG401 AACGGGCC PPDB Motif AAACG(C/G), ACGGGC, CCAACGG PLACE Motif GGGCC

REG TAAAACGCC - 1416126 1416134 AT3G05060.1

AtREG564 TAAAACGC PPDB Motif AAACG(C/G) PLACE Motif

AtREG650 AAAACGCC PPDB Motif AAACG(C/G) PLACE Motif