PlantPromoterDB promoter information of AT1G13900.1

Summary of Gene (AT1G13900.1)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G13900 TAIR NCBI
Gene model	AT1G13900.1
Description	calcineurin-like phosphoesterase family protein; FUNCTIONS IN: hydrolase activity, protein serine/threonine phosphatase activity, metal ion binding, acid phosphatase activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Purple acid phosphatase, N-terminal (InterPro:IPR015914), Metallophosphoesterase (InterPro:IPR004843), Purple acid phosphatase-like, N-terminal (InterPro:IPR008963); BEST Arabidopsis thaliana protein match is: PAP9 (PURPLE ACID PHOSPHATASE 9); acid phosphatase/ protein serine/threonine phosphatase (TAIR:AT2G03450.1); Has 1052 Blast hits to 1042 proteins in 232 species: Archae - 0; Bacteria - 259; Metazoa - 179; Fungi - 58; Plants - 399; Viruses - 0; Other Eukaryotes - 157 (source: NCBI BLink).

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Overview

Focused view (chromosome 1: 4756554-4755355)

`Genome position from initiation codon` `TSS from cDNA TSS information AT1G13900.1 5'->3' (-) Promoter sequence AT1G13910.1 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 AT1G13900.1

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 A clone - 4755580 -26

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`A`	clone	-	4755580	-26

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 TTTATATATCT - 4755604 4755614 -50 -60

Y Patch TCTCTTTCTTCCTC - 4755528 4755541 26 13

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	`TTTATATATCT`	-	4755604	4755614	-50	-60
Y Patch	`TCTCTTTCTTCCTC`	-	4755528	4755541	26	13
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 ACGTCGTCGTTTA - 4755623 4755635 -69 -81

AtREG526 ACGTCGTC      PPDB Motif ACGT PLACE Motif ACGT

AtREG648    TCGTCGTT   PPDB Motif PLACE Motif

AtREG415     CGTCGTTT PPDB Motif PLACE Motif

AtREG565      GTCGTTTA PPDB Motif PLACE Motif

REG GTAAGGCCCATAATATTGGGCTTAGATAGGCCCATATA - 4755706 4755743 -152 -189

AtREG530 GTAAGGCC                               PPDB Motif PLACE Motif

AtREG351 TAAGGCCC                              PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA                             PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    AGGCCCAT                AGGCCCAT    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG364     GGCCCATA                GGCCCATA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG394      GCCCATAA                          PPDB Motif GCCCA PLACE Motif

AtREG509             ATATTGGG                   PPDB Motif PLACE Motif

AtREG355              TATTGGGC                  PPDB Motif GCCCA PLACE Motif

AtREG402               ATTGGGCT                 PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407                TTGGGCTT                PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG426                 TGGGCTTA               PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG634                  GGGCTTAG              PPDB Motif GCCCA PLACE Motif

AtREG362                          ATAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358                           TAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG432                              GCCCATAT PPDB Motif GCCCA PLACE Motif

AtREG620                               CCCATATA PPDB Motif GCCCA PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ACGTCGTCGTTTA`		-	4755623	4755635	-69	-81
	AtREG526	`ACGTCGTC`		PPDB Motif	`ACGT`	PLACE Motif	`ACGT`
	AtREG648	`TCGTCGTT`		PPDB Motif		PLACE Motif
	AtREG415	`CGTCGTTT`		PPDB Motif		PLACE Motif
	AtREG565	`GTCGTTTA`		PPDB Motif		PLACE Motif
REG	`GTAAGGCCCATAATATTGGGCTTAGATAGGCCCATATA`		-	4755706	4755743	-152	-189
	AtREG530	`GTAAGGCC`		PPDB Motif		PLACE Motif
	AtREG351	`TAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG354	`AGGCCCAT AGGCCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG364	`GGCCCATA GGCCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG394	`GCCCATAA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG509	`ATATTGGG`		PPDB Motif		PLACE Motif
	AtREG355	`TATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG402	`ATTGGGCT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`TTGGGCTT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG426	`TGGGCTTA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG634	`GGGCTTAG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG362	`ATAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG432	`GCCCATAT`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG620	`CCCATATA`		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 + 4755827 AT1G13910.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	4	+	4755827	AT1G13910.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone C clone + 4755784 AT1G13910.1

TSS clone G clone + 4755792 AT1G13910.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	+	4755784	AT1G13910.1
TSS clone	`G`	clone	+	4755792	AT1G13910.1

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 CTTTCTTC + 4755818 4755825 AT1G13910.1

Y Patch TTCTTCTTCTTCCTC + 4755844 4755858 AT1G13910.1

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	`CTTTCTTC`	+	4755818	4755825	AT1G13910.1
Y Patch	`TTCTTCTTCTTCCTC`	+	4755844	4755858	AT1G13910.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TAAACGACGACGT + 4755623 4755635 AT1G13910.1

AtREG565 TAAACGAC      PPDB Motif PLACE Motif

AtREG415 AAACGACG     PPDB Motif PLACE Motif

AtREG648   AACGACGA    PPDB Motif PLACE Motif

AtREG526      GACGACGT PPDB Motif ACGT PLACE Motif ACGT

REG TATATGGGCCTATCTAAGCCCAATATTATGGGCCTTAC + 4755706 4755743 AT1G13910.1

AtREG620 TATATGGG                               PPDB Motif GCCCA PLACE Motif

AtREG432 ATATGGGC                              PPDB Motif GCCCA PLACE Motif

AtREG364   TATGGGCC                TATGGGCC     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG354    ATGGGCCT                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

AtREG634              CTAAGCCC                  PPDB Motif GCCCA PLACE Motif

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

AtREG509                   CCCAATAT             PPDB Motif PLACE Motif

AtREG394                          TTATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG353                             TGGGCCTT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG351                              GGGCCTTA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG530                               GGCCTTAC PPDB Motif PLACE Motif