PlantPromoterDB promoter information of AT4G38780.1

Summary of Gene (AT4G38780.1)

Organism	Arabidopsis thaliana
Chromosome	4
Locus	AT4G38780 TAIR NCBI
Gene model	AT4G38780.1
Description	splicing factor, putative; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: nuclear mRNA splicing, via spliceosome; LOCATED IN: spliceosome; EXPRESSED IN: 19 plant structures; EXPRESSED DURING: 8 growth stages; CONTAINS InterPro DOMAIN/s: Mov34/MPN/PAD-1 (InterPro:IPR000555), Pre-mRNA-processing-splicing factor 8 (InterPro:IPR012591), PRO, C-terminal (InterPro:IPR012984), PROCN (InterPro:IPR012592); BEST Arabidopsis thaliana protein match is: SUS2 (ABNORMAL SUSPENSOR 2) (TAIR:AT1G80070.1); Has 520 Blast hits to 458 proteins in 186 species: Archae - 0; Bacteria - 2; Metazoa - 194; Fungi - 143; Plants - 29; Viruses - 0; Other Eukaryotes - 152 (source: NCBI BLink).

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Overview

Focused view (chromosome 4: 18111879-18110680)

`Genome position from initiation codon` `AT4G38781.1 TSS from cDNA TSS information AT4G38780.1 5'->3' (-) Promoter sequence AT4G38790.1 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 AT4G38780.1

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

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
Not Available	Not Available	Not Available	Not Available	Not Available

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 None None None

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	None	None	None

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 18 + 18111370 AT4G38790.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	18	+	18111370	AT4G38790.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone C clone + 18111362 AT4G38790.1

TSS clone C clone + 18111369 AT4G38790.1

TSS clone A clone + 18111370 AT4G38790.1

TSS clone C clone + 18111371 AT4G38790.1

TSS clone G clone + 18111376 AT4G38790.1

TSS clone C clone + 18111377 AT4G38790.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`C`	clone	+	18111362	AT4G38790.1
TSS clone	`C`	clone	+	18111369	AT4G38790.1
TSS clone	`A`	clone	+	18111370	AT4G38790.1
TSS clone	`C`	clone	+	18111371	AT4G38790.1
TSS clone	`G`	clone	+	18111376	AT4G38790.1
TSS clone	`C`	clone	+	18111377	AT4G38790.1

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 TCTCTCTC + 18111342 18111349 AT4G38790.1

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	`TCTCTCTC`	+	18111342	18111349	AT4G38790.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AACCGAAC + 18111164 18111171 AT4G38790.1

AtREG556 AACCGAAC PPDB Motif AACCG(G/A) PLACE Motif

REG CATGGGCCTTTT + 18111195 18111206 AT4G38790.1

AtREG504 CATGGGCC     PPDB Motif GCCCA, CCATGG 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 TTATGGGCCTAAT + 18111226 18111238 AT4G38790.1

AtREG394 TTATGGGC      PPDB Motif GCCCA PLACE Motif

AtREG364 TATGGGCC     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

AtREG360     GGGCCTAA PPDB Motif GCCCA PLACE Motif GGGCC

AtREG506      GGCCTAAT PPDB Motif PLACE Motif