PlantPromoterDB promoter information of AT5G16250.1

Summary of Gene (AT5G16250.1)

Organism	Arabidopsis thaliana
Chromosome	5
Locus	AT5G16250 TAIR NCBI
Gene model	AT5G16250.1
Description	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT3G02640.1); Has 56 Blast hits to 56 proteins in 10 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 56; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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Overview

Focused view (chromosome 5: 5311815-5310616)

`Genome position from initiation codon` `TSS from cDNA TSS information AT5G16250.1 5'->3' (-) Promoter sequence AT5G16260.1 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 AT5G16250.1

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 13 - 5310907 -92

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	13	-	5310907	-92

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone A clone - 5310951 -136

TSS clone C clone - 5310908 -93

TSS clone A clone - 5310907 -92

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`A`	clone	-	5310951	-136
TSS clone	`C`	clone	-	5310908	-93
TSS clone	`A`	clone	-	5310907	-92

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 CTCTTCTTCTTCTTCT - 5310880 5310895 -65 -80

Y Patch CTCTTCTC - 5310914 5310921 -99 -106

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	`CTCTTCTTCTTCTTCT`	-	5310880	5310895	-65	-80
Y Patch	`CTCTTCTC`	-	5310914	5310921	-99	-106
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 CAACGGTC - 5310989 5310996 -174 -181

AtREG553 CAACGGTC Auxin PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

REG CATTGGGCCCA - 5311047 5311057 -232 -242

AtREG461 CATTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG352 ATTGGGCC   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392   TTGGGCCC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG422    TGGGCCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG ACGGCCCACTAGGCCCAC - 5311084 5311101 -269 -286

AtREG368 ACGGCCCA           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG532    GCCCACTA        PPDB Motif GCCCA PLACE Motif

AtREG475         CTAGGCCC   PPDB Motif GCCCA PLACE Motif GGGCC

AtREG358          TAGGCCCA PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG482           AGGCCCAC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG ACGGCCCATTAGGCCC - 5311156 5311171 -341 -356

AtREG368 ACGGCCCA         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

AtREG558     CCCATTAG     PPDB Motif GCCCA PLACE Motif

AtREG506        ATTAGGCC PPDB Motif PLACE Motif

AtREG360         TTAGGCCC PPDB Motif GCCCA PLACE Motif GGGCC

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`CAACGGTC`		-	5310989	5310996	-174	-181
	AtREG553	`CAACGGTC`	Auxin	PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`
REG	`CATTGGGCCCA`		-	5311047	5311057	-232	-242
	AtREG461	`CATTGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG352	`ATTGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG392	`TTGGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG422	`TGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`ACGGCCCACTAGGCCCAC`		-	5311084	5311101	-269	-286
	AtREG368	`ACGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG532	`GCCCACTA`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG475	`CTAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG358	`TAGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG482	`AGGCCCAC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`ACGGCCCATTAGGCCC`		-	5311156	5311171	-341	-356
	AtREG368	`ACGGCCCA`		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
	AtREG558	`CCCATTAG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG506	`ATTAGGCC`		PPDB Motif		PLACE Motif
	AtREG360	`TTAGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`

Other Reliable Promoter Summary

TSS information

Type Sequence TPM score Genome position Gene model

Strand Position

Not Available Not Available Not Available Not Available Not Available

Type	Sequence	TPM score	Genome position	Gene model
			Strand	Position
Not Available	Not Available	Not Available	Not Available	Not Available

TSS information from cDNA

Type Sequence Score Genome position Gene model

Strand Position

TSS clone peak A clone + 5311207 AT5G16260.1

TSS clone peak T clone + 5311208 AT5G16260.1

Type	Sequence	Score	Genome position	Gene model
			Strand	Position
TSS clone peak	`A`	clone	+	5311207	AT5G16260.1
TSS clone peak	`T`	clone	+	5311208	AT5G16260.1

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 CGTCTTCCTCCT + 5311243 5311254 AT5G16260.1

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	`CGTCTTCCTCCT`	+	5311243	5311254	AT5G16260.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG GACCGTTG + 5310989 5310996 AT5G16260.1

AtREG553 GACCGTTG Auxin PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

REG TGGGCCCAATG + 5311047 5311057 AT5G16260.1

AtREG422 TGGGCCCA    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG392 GGGCCCAA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG352   GGCCCAAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG461    GCCCAATG PPDB Motif GCCCA PLACE Motif

REG GTGGGCCTAGTGGGCCGT + 5311084 5311101 AT5G16260.1

AtREG482 GTGGGCCT           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG358 TGGGCCTA          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG475   GGGCCTAG         PPDB Motif GCCCA PLACE Motif GGGCC

AtREG532        TAGTGGGC    PPDB Motif GCCCA PLACE Motif

AtREG368           TGGGCCGT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG GGGCCTAATGGGCCG + 5311156 5311170 AT5G16260.1

AtREG360 GGGCCTAA        PPDB Motif GCCCA PLACE Motif GGGCC

AtREG506 GGCCTAAT       PPDB Motif PLACE Motif

AtREG558     CTAATGGG    PPDB Motif GCCCA PLACE Motif

AtREG357      TAATGGGC   PPDB Motif GCCCA PLACE Motif

AtREG361       AATGGGCC PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG380        ATGGGCCG PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY