PlantPromoterDB promoter information of AT3G13672.1

Summary of Gene (AT3G13672.1)

Organism	Arabidopsis thaliana
Chromosome	3
Locus	AT3G13672 TAIR NCBI
Gene model	AT3G13672.1
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: 4477093-4475894)

`Genome position from initiation codon` `AT3G13674.1 TSS from cDNA TSS information AT3G13672.1 5'->3' (-) Promoter sequence AT3G13677.1 AT3G13677.2 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 AT3G13672.1

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 - 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 G 2 + 4476049 AT3G13677.1, AT3G13677.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`G`	2	+	4476049	AT3G13677.1, AT3G13677.2

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 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 TAGGGCTT + 4475921 4475928 AT3G13677.1, AT3G13677.2

AtREG651 TAGGGCTT PPDB Motif PLACE Motif

REG CCCGGGTCGGGTT + 4475952 4475964 AT3G13677.1, AT3G13677.2

AtREG593 CCCGGGTC      PPDB Motif GGGACCC PLACE Motif

AtREG494 CCGGGTCG     PPDB Motif PLACE Motif

AtREG375   CGGGTCGG    PPDB Motif CCGAC PLACE Motif CCGAC

AtREG442    GGGTCGGG   PPDB Motif CCGAC PLACE Motif CCGAC

AtREG405     GGTCGGGT PPDB Motif CCGAC PLACE Motif CCGAC

AtREG580      GTCGGGTT PPDB Motif CCGAC PLACE Motif CCGAC

REG CGGGTCGGGT + 4475978 4475987 AT3G13677.1, AT3G13677.2

AtREG375 CGGGTCGG   PPDB Motif CCGAC PLACE Motif CCGAC

AtREG442 GGGTCGGG PPDB Motif CCGAC PLACE Motif CCGAC

AtREG405   GGTCGGGT PPDB Motif CCGAC PLACE Motif CCGAC

REG AAAAAGCC + 4476001 4476008 AT3G13677.1, AT3G13677.2

AtREG589 AAAAAGCC PPDB Motif PLACE Motif