PlantPromoterDB promoter information of AT5G47890.1

Summary of Gene (AT5G47890.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G47890 TAIR NCBI
Gene model	AT5G47890.1
Description	NADH-ubiquinone oxidoreductase B8 subunit, putative; FUNCTIONS IN: oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor; INVOLVED IN: biological_process unknown; LOCATED IN: mitochondrion, respiratory chain complex I; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ribosomal protein/NADH dehydrogenase domain (InterPro:IPR007741), NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 2 (InterPro:IPR016464); Has 239 Blast hits to 239 proteins in 114 species: Archae - 0; Bacteria - 0; Metazoa - 117; Fungi - 63; Plants - 30; Viruses - 0; Other Eukaryotes - 29 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 19387806-19389005)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G47890.1 5'->3' (+) Promoter sequence AT5G47880.1 AT5G47880.2 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 AT5G47890.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone T clone + 19388744 -62

TSS clone C clone + 19388745 -61

TSS clone T clone + 19388746 -60

TSS clone peak T clone + 19388748 -58

TSS clone A clone + 19388788 -18

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`T`	clone	+	19388744	-62
TSS clone	`C`	clone	+	19388745	-61
TSS clone	`T`	clone	+	19388746	-60
TSS clone peak	`T`	clone	+	19388748	-58
TSS clone	`A`	clone	+	19388788	-18

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 21 - 19388562 AT5G47880.1, AT5G47880.2

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
TSS peak	`A`	21	-	19388562	AT5G47880.1, AT5G47880.2

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone A clone - 19388562 AT5G47880.1, AT5G47880.2

TSS clone T clone - 19388561 AT5G47880.1, AT5G47880.2

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone	`A`	clone	-	19388562	AT5G47880.1, AT5G47880.2
TSS clone	`T`	clone	-	19388561	AT5G47880.1, AT5G47880.2

Core promoter information

Type Sequence Genome position Gene model

Strand Start End

initiator Not Available Not Available Not Available

TATA Box TTATATATATTC - 19388588 19388599 AT5G47880.1, AT5G47880.2

Y Patch TCTCTTTCTCT - 19388579 19388589 AT5G47880.1, AT5G47880.2

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	`TTATATATATTC`	-	19388588	19388599	AT5G47880.1, AT5G47880.2
Y Patch	`TCTCTTTCTCT`	-	19388579	19388589	AT5G47880.1, AT5G47880.2
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG AGTCGGTT - 19388640 19388647 AT5G47880.1, AT5G47880.2

AtREG641 AGTCGGTT PPDB Motif AACCG(G/A), CCGAC PLACE Motif CCGAC, RCCGAC

REG TACTGGGCTTAGGCCCATTAA - 19388651 19388671 AT5G47880.1, AT5G47880.2

AtREG434 TACTGGGC              PPDB Motif GCCCA PLACE Motif

AtREG426    TGGGCTTA           PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG634     GGGCTTAG          PPDB Motif GCCCA PLACE Motif

AtREG563        CTTAGGCC       PPDB Motif PLACE Motif

AtREG360         TTAGGCCC      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

AtREG396              CCCATTAA PPDB Motif GCCCA PLACE Motif TTAATGG

REG TTCGGCCCATTAAG - 19388685 19388698 AT5G47880.1, AT5G47880.2

AtREG427 TTCGGCCC       PPDB Motif GCCCA PLACE Motif GGGCC

AtREG393 TCGGCCCA      PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380   CGGCCCAT     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

AtREG604       CCATTAAG PPDB Motif PLACE Motif TTAATGG