PlantPromoterDB promoter information of AT5G14580.1

Summary of Gene (AT5G14580.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G14580 TAIR NCBI
Gene model	AT5G14580.1
Description	polyribonucleotide nucleotidyltransferase, putative; FUNCTIONS IN: polyribonucleotide nucleotidyltransferase activity, 3'-5'-exoribonuclease activity, RNA binding, nucleic acid binding; INVOLVED IN: mRNA catabolic process, RNA processing; EXPRESSED IN: 16 plant structures; EXPRESSED DURING: 7 growth stages; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold (InterPro:IPR012340), K Homology, type 1, subgroup (InterPro:IPR018111), Exoribonuclease, phosphorolytic domain 2 (InterPro:IPR015847), S1, RNA binding (InterPro:IPR003029), Polynucleotide phosphorylase, phosphorolytic RNA-binding, bacterial/organelle-type (InterPro:IPR015848), Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), K Homology (InterPro:IPR004087), Exoribonuclease, phosphorolytic domain 1 (InterPro:IPR001247), Polyribonucleotide nucleotidyltransferase (InterPro:IPR012162); BEST Arabidopsis thaliana protein match is: RIF10 (resistant to inhibition with FSM 10); 3'-5'-exoribonuclease/ RNA binding / nucleic acid binding / polyribonucleotide nucleotidyltransferase (TAIR:AT3G03710.1); Has 19856 Blast hits to 18048 proteins in 1642 species: Archae - 206; Bacteria - 10090; Metazoa - 440; Fungi - 100; Plants - 266; Viruses - 0; Other Eukaryotes - 8754 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 4707313-4706114)

`Genome position from initiation codon` `AT5G14590.1 TSS from cDNA TSS information AT5G14580.1 5'->3' (-) Promoter sequence AT5G14600.1 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 AT5G14580.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 2 - 4703615 -602

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	2	-	4703615	-602

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 CCAAACCG - 4703706 4703713 -693 -700

AtREG550 CCAAACCG PPDB Motif AACCG(G/A) PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CCAAACCG`		-	4703706	4703713	-693	-700
	AtREG550	`CCAAACCG`		PPDB Motif	`AACCG(G/A)`	PLACE Motif

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

TSS peak A 5 + 4706974 AT5G14600.1

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	5	+	4706974	AT5G14600.1

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone G clone + 4706983 AT5G14600.1

TSS clone A clone - 4706738 AT5G14590.1

TSS clone A clone - 4706735 AT5G14590.1

TSS clone T clone - 4706734 AT5G14590.1

TSS clone peak A clone - 4706732 AT5G14590.1

TSS clone C clone - 4706698 AT5G14590.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`G`	clone	+	4706983	AT5G14600.1
TSS clone	`A`	clone	-	4706738	AT5G14590.1
TSS clone	`A`	clone	-	4706735	AT5G14590.1
TSS clone	`T`	clone	-	4706734	AT5G14590.1
TSS clone peak	`A`	clone	-	4706732	AT5G14590.1
TSS clone	`C`	clone	-	4706698	AT5G14590.1

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 CTCTCTTTTCCTTCT - 4706770 4706784 AT5G14590.1

Y Patch TTCTTCCTTCTC + 4706984 4706995 AT5G14600.1

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	`CTCTCTTTTCCTTCT`	-	4706770	4706784	AT5G14590.1
Y Patch	`TTCTTCCTTCTC`	+	4706984	4706995	AT5G14600.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TACTGGGCCTTATGTTGGGCCTAC - 4706802 4706825 AT5G14590.1

AtREG434 TACTGGGC                 PPDB Motif GCCCA PLACE Motif

AtREG384 ACTGGGCC                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410   CTGGGCCT               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG353    TGGGCCTT              PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG351     GGGCCTTA             PPDB Motif GCCCA PLACE Motif GGGCC

AtREG425      GGCCTTAT            PPDB Motif AACCG(G/A) PLACE Motif

AtREG543             TGTTGGGC     PPDB Motif GCCCA PLACE Motif CAACA

AtREG449              GTTGGGCC    PPDB Motif GCCCA, CCAACGG PLACE Motif GGGCC, TGGGCY

AtREG356               TTGGGCCT   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358                TGGGCCTA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG435                 GGGCCTAC PPDB Motif GCCCA PLACE Motif GGGCC

REG ATCCGGTTTGG - 4706847 4706857 AT5G14590.1

AtREG561 ATCCGGTT    PPDB Motif AACCG(G/A) PLACE Motif

AtREG521 TCCGGTTT   PPDB Motif AACCG(G/A) PLACE Motif

AtREG496   CCGGTTTG PPDB Motif AACCG(G/A) PLACE Motif

AtREG550    CGGTTTGG PPDB Motif AACCG(G/A) PLACE Motif

REG CGAACCGGC - 4706860 4706868 AT5G14590.1

AtREG423 CGAACCGG PPDB Motif AACCG(G/A) PLACE Motif

AtREG637 GAACCGGC PPDB Motif AACCG(G/A) PLACE Motif

REG AACCGGAC - 4706891 4706898 AT5G14590.1

AtREG573 AACCGGAC PPDB Motif AACCG(G/A) PLACE Motif

REG GTAGGCCCAACATAAGGCCCAGTA + 4706802 4706825 AT5G14600.1

AtREG435 GTAGGCCC                 PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358 TAGGCCCA                PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG356   AGGCCCAA               PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG449    GGCCCAAC              PPDB Motif GCCCA, CCAACGG PLACE Motif GGGCC, TGGGCY

AtREG543     GCCCAACA             PPDB Motif GCCCA PLACE Motif CAACA

AtREG425            ATAAGGCC      PPDB Motif AACCG(G/A) PLACE Motif

AtREG351             TAAGGCCC     PPDB Motif GCCCA PLACE Motif GGGCC

AtREG353              AAGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG410               AGGCCCAG   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG384                GGCCCAGT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG434                 GCCCAGTA PPDB Motif GCCCA PLACE Motif

REG CCAAACCGGAT + 4706847 4706857 AT5G14600.1

AtREG550 CCAAACCG    PPDB Motif AACCG(G/A) PLACE Motif

AtREG496 CAAACCGG   PPDB Motif AACCG(G/A) PLACE Motif

AtREG521   AAACCGGA PPDB Motif AACCG(G/A) PLACE Motif

AtREG561    AACCGGAT PPDB Motif AACCG(G/A) PLACE Motif

REG GCCGGTTCG + 4706860 4706868 AT5G14600.1

AtREG637 GCCGGTTC PPDB Motif AACCG(G/A) PLACE Motif

AtREG423 CCGGTTCG PPDB Motif AACCG(G/A) PLACE Motif

REG GTCCGGTT + 4706891 4706898 AT5G14600.1

AtREG573 GTCCGGTT PPDB Motif AACCG(G/A) PLACE Motif