PlantPromoterDB promoter information of AT3G13672.2

Summary of Gene (AT3G13672.2)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G13672 TAIR NCBI
Gene model	AT3G13672.2
Description	seven in absentia (SINA) family protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: multicellular organismal development, ubiquitin-dependent protein catabolic process; LOCATED IN: nucleus; EXPRESSED IN: 11 plant structures; EXPRESSED DURING: LP.06 six leaves visible, 4 anthesis, LP.04 four leaves visible, petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: TRAF-like (InterPro:IPR008974), Seven in absentia protein, TRAF-like domain (InterPro:IPR018121), Seven in absentia protein (InterPro:IPR004162), TRAF-type (InterPro:IPR013322); BEST Arabidopsis thaliana protein match is: SINAT2 (SEVEN IN ABSENTIA OF ARABIDOPSIS 2); protein binding / ubiquitin-protein ligase/ zinc ion binding (TAIR:AT3G58040.1); Has 352 Blast hits to 352 proteins in 64 species: Archae - 0; Bacteria - 0; Metazoa - 218; Fungi - 0; Plants - 128; Viruses - 0; Other Eukaryotes - 6 (source: NCBI BLink).

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Overview

Focused view (chromosome 3: 4492893-4491694)

`Genome position from initiation codon` `AT3G13700.1 AT3G13700.2 AT3G13710.1 TSS from cDNA TSS information AT3G13672.2 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 AT3G13672.2

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 - 4474378 -35

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone peak	`A`	clone	-	4474378	-35

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 CTTTCTCCTCTTTC - 4474384 4474397 -41 -54

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	`CTTTCTCCTCTTTC`	-	4474384	4474397	-41	-54
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 CCCAATTG - 4474671 4474678 -328 -335

AtREG647 CCCAATTG PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CCCAATTG`		-	4474671	4474678	-328	-335
	AtREG647	`CCCAATTG`		PPDB Motif		PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 5 - 4492695 AT3G13700.1, AT3G13700.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	5	-	4492695	AT3G13700.1, AT3G13700.2

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 CTCTCTTC - 4492679 4492686 AT3G13700.1, AT3G13700.2

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	`CTCTCTTC`	-	4492679	4492686	AT3G13700.1, AT3G13700.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TCAGCCCATAA - 4492751 4492761 AT3G13700.1, AT3G13700.2

AtREG609 TCAGCCCA    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG477   AGCCCATA PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG394    GCCCATAA PPDB Motif GCCCA PLACE Motif

REG TTAAGGCCCAATAG - 4492764 4492777 AT3G13700.1, AT3G13700.2

AtREG416 TTAAGGCC       PPDB Motif PLACE Motif

AtREG351 TAAGGCCC      PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353   AAGGCCCA     PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356    AGGCCCAA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352     GGCCCAAT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG355      GCCCAATA PPDB Motif GCCCA PLACE Motif

AtREG624       CCCAATAG PPDB Motif GCCCA PLACE Motif

REG CTTATTGGGCCAT - 4492781 4492793 AT3G13700.1, AT3G13700.2

AtREG611 CTTATTGG      PPDB Motif PLACE Motif

AtREG417 TTATTGGG     PPDB Motif GCCCA PLACE Motif

AtREG355   TATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG352    ATTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG420     TTGGGCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437      TGGGCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY