PlantPromoterDB promoter information of AT3G58600.1

Summary of Gene (AT3G58600.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G58600 TAIR NCBI
Gene model	AT3G58600.1
Description	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: endocytosis; LOCATED IN: membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Adaptin ear-binding coat-associated protein 1 NECAP-1 (InterPro:IPR012466); BEST Arabidopsis thaliana protein match is: ATNAP4 (Arabidopsis thaliana non-intrinsic ABC protein 4); ATPase, coupled to transmembrane movement of substances / transporter (TAIR:AT1G03900.1); Has 329 Blast hits to 329 proteins in 94 species: Archae - 0; Bacteria - 0; Metazoa - 191; Fungi - 43; Plants - 52; Viruses - 0; Other Eukaryotes - 43 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 21671999-21670800)

`Genome position from initiation codon` `TSS from cDNA TSS information AT3G58600.1 5'->3' (-) Promoter sequence AT3G58610.1 AT3G58610.2 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 AT3G58600.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak G 5 - 21671102 -103

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`G`	5	-	21671102	-103

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 21671071 -72

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	21671071	-72

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 AAAGTCAA - 21671244 21671251 -245 -252

AtREG632 AAAGTCAA PPDB Motif PLACE Motif TTGAC

REG AAAAGGCCCATTAA - 21671361 21671374 -362 -375

AtREG459 AAAAGGCC       PPDB Motif PLACE Motif

AtREG359 AAAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA     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 ATAATGGGCCTAGGCCTATT - 21671380 21671399 -381 -400

AtREG546 ATAATGGG             PPDB Motif PLACE Motif

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

AtREG475      GGGCCTAG        PPDB Motif GCCCA PLACE Motif GGGCC

AtREG649            AGGCCTAT PPDB Motif PLACE Motif

AtREG424             GGCCTATT PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`AAAGTCAA`		-	21671244	21671251	-245	-252
	AtREG632	`AAAGTCAA`		PPDB Motif		PLACE Motif	`TTGAC`
REG	`AAAAGGCCCATTAA`		-	21671361	21671374	-362	-375
	AtREG459	`AAAAGGCC`		PPDB Motif		PLACE Motif
	AtREG359	`AAAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG353	`AAGGCCCA`		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	`ATAATGGGCCTAGGCCTATT`		-	21671380	21671399	-381	-400
	AtREG546	`ATAATGGG`		PPDB Motif		PLACE Motif
	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`
	AtREG475	`GGGCCTAG`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG649	`AGGCCTAT`		PPDB Motif		PLACE Motif
	AtREG424	`GGCCTATT`		PPDB Motif		PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak G 17 + 21671515 AT3G58610.1, AT3G58610.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	17	+	21671515	AT3G58610.1, AT3G58610.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 21671450 AT3G58610.1, AT3G58610.2

TSS clone G clone + 21671452 AT3G58610.1, AT3G58610.2

TSS clone G clone + 21671460 AT3G58610.1, AT3G58610.2

TSS clone T clone + 21671469 AT3G58610.1, AT3G58610.2

TSS clone T clone + 21671471 AT3G58610.1, AT3G58610.2

TSS clone T clone + 21671479 AT3G58610.1, AT3G58610.2

TSS clone A clone + 21671491 AT3G58610.1, AT3G58610.2

TSS clone C clone + 21671492 AT3G58610.1, AT3G58610.2

TSS clone C clone + 21671494 AT3G58610.1, AT3G58610.2

TSS clone C clone + 21671508 AT3G58610.1, AT3G58610.2

TSS clone A clone + 21671510 AT3G58610.1, AT3G58610.2

TSS clone A clone + 21671511 AT3G58610.1, AT3G58610.2

TSS clone G clone + 21671515 AT3G58610.1, AT3G58610.2

TSS clone T clone + 21671516 AT3G58610.1, AT3G58610.2

TSS clone G clone + 21671517 AT3G58610.1, AT3G58610.2

TSS clone A clone + 21671542 AT3G58610.1, AT3G58610.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	21671450	AT3G58610.1, AT3G58610.2
TSS clone	`G`	clone	+	21671452	AT3G58610.1, AT3G58610.2
TSS clone	`G`	clone	+	21671460	AT3G58610.1, AT3G58610.2
TSS clone	`T`	clone	+	21671469	AT3G58610.1, AT3G58610.2
TSS clone	`T`	clone	+	21671471	AT3G58610.1, AT3G58610.2
TSS clone	`T`	clone	+	21671479	AT3G58610.1, AT3G58610.2
TSS clone	`A`	clone	+	21671491	AT3G58610.1, AT3G58610.2
TSS clone	`C`	clone	+	21671492	AT3G58610.1, AT3G58610.2
TSS clone	`C`	clone	+	21671494	AT3G58610.1, AT3G58610.2
TSS clone	`C`	clone	+	21671508	AT3G58610.1, AT3G58610.2
TSS clone	`A`	clone	+	21671510	AT3G58610.1, AT3G58610.2
TSS clone	`A`	clone	+	21671511	AT3G58610.1, AT3G58610.2
TSS clone	`G`	clone	+	21671515	AT3G58610.1, AT3G58610.2
TSS clone	`T`	clone	+	21671516	AT3G58610.1, AT3G58610.2
TSS clone	`G`	clone	+	21671517	AT3G58610.1, AT3G58610.2
TSS clone	`A`	clone	+	21671542	AT3G58610.1, AT3G58610.2

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 CTTCTCTC + 21671483 21671490 AT3G58610.1, AT3G58610.2

Y Patch CTCTCTTCTCTT + 21671520 21671531 AT3G58610.1, AT3G58610.2

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	`CTTCTCTC`	+	21671483	21671490	AT3G58610.1, AT3G58610.2
Y Patch	`CTCTCTTCTCTT`	+	21671520	21671531	AT3G58610.1, AT3G58610.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TTGACTTT + 21671244 21671251 AT3G58610.1, AT3G58610.2

AtREG632 TTGACTTT PPDB Motif PLACE Motif TTGAC

REG TTAATGGGCCTTTT + 21671361 21671374 AT3G58610.1, AT3G58610.2

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

AtREG353     TGGGCCTT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG359      GGGCCTTT PPDB Motif GCCCA PLACE Motif GGGCC

AtREG459       GGCCTTTT PPDB Motif PLACE Motif

REG AATAGGCCTAGGCCCATTAT + 21671380 21671399 AT3G58610.1, AT3G58610.2

AtREG424 AATAGGCC             PPDB Motif PLACE Motif

AtREG649 ATAGGCCT            PPDB Motif PLACE Motif

AtREG475        CTAGGCCC      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

AtREG546             CCCATTAT PPDB Motif PLACE Motif