PlantPromoterDB promoter information of AT1G05850

Summary of Gene (AT1G05850)

Organism	Arabidopsis thaliana
Chromosome	1
Locus	AT1G05850 TAIR NCBI
Gene model	AT1G05850
Description	Encodes an endo chitinase-like protein AtCTL1. Essential for tolerance to heat, salt and drought stresses. Also involved in root hair development, cell expansion and response to cytokinin. Allelic to erh2. 11 alleles described in Hauser (1995). Mutant is defective in acquired thermotolerance, appears semidwarf throughout its life cycle and has extra lateral branches. There are two EMS alleles. Expression of AtHSP101 is not affected in the mutants.

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Overview

Focused view (chromosome 1: 1769117-1767918)

`Genome position from initiation codon` `AT1G05850.1 TSS from cDNA TSS information AT1G05850 5'->3' (-) Promoter sequence AT1G05860.1 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 AT1G05850

TSS information

Type Sequence TPM score Genome position Position from initiation codon

Strand Position Position

TSS peak A 300 - 1768663 -546

Type	Sequence	TPM score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS peak	`A`	300	-	1768663	-546

TSS information from cDNA

Type Sequence Score Genome position Position from initiation codon

Strand Position Position

TSS clone G clone - 1768695 -578

TSS clone G clone - 1768690 -573

TSS clone C clone - 1768665 -548

TSS clone A clone - 1768663 -546

TSS clone A clone - 1768662 -545

TSS clone A clone - 1768659 -542

TSS clone T clone - 1768656 -539

TSS clone T clone - 1768654 -537

TSS clone C clone - 1768652 -535

TSS clone A clone - 1768648 -531

TSS clone T clone - 1768647 -530

TSS clone G clone - 1768639 -522

TSS clone A clone - 1768637 -520

TSS clone T clone - 1768612 -495

TSS clone T clone - 1768574 -457

TSS clone T clone - 1768562 -445

TSS clone T clone - 1768137 -20

Type	Sequence	Score	Genome position	Position from initiation codon
			Strand	Position	Position
TSS clone	`G`	clone	-	1768695	-578
TSS clone	`G`	clone	-	1768690	-573
TSS clone	`C`	clone	-	1768665	-548
TSS clone	`A`	clone	-	1768663	-546
TSS clone	`A`	clone	-	1768662	-545
TSS clone	`A`	clone	-	1768659	-542
TSS clone	`T`	clone	-	1768656	-539
TSS clone	`T`	clone	-	1768654	-537
TSS clone	`C`	clone	-	1768652	-535
TSS clone	`A`	clone	-	1768648	-531
TSS clone	`T`	clone	-	1768647	-530
TSS clone	`G`	clone	-	1768639	-522
TSS clone	`A`	clone	-	1768637	-520
TSS clone	`T`	clone	-	1768612	-495
TSS clone	`T`	clone	-	1768574	-457
TSS clone	`T`	clone	-	1768562	-445
TSS clone	`T`	clone	-	1768137	-20

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 TCTCTTCCT - 1768650 1768658 -533 -541

Y Patch TTTCTTCTTCCTCCTCTCTTTC - 1768666 1768687 -549 -570

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	`TCTCTTCCT`	-	1768650	1768658	-533	-541
Y Patch	`TTTCTTCTTCCTCCTCTCTTTC`	-	1768666	1768687	-549	-570
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 ATCCAACGG - 1768729 1768737 -612 -620

AtREG586 ATCCAACG PPDB Motif CCAACGG PLACE Motif

AtREG554 TCCAACGG PPDB Motif CCAACGG PLACE Motif YAACKG, CNGTTR

REG TAGGGCCCACA - 1768813 1768823 -696 -706

AtREG387 TAGGGCCC    PPDB Motif GCCCA PLACE Motif GGGCC

AtREG400 AGGGCCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG612    GGCCCACA DREB1Aox PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

REG TAAAAGCCCAATGGGCCATA - 1768926 1768945 -809 -828

AtREG549 TAAAAGCC             PPDB Motif PLACE Motif

AtREG409 AAAAGCCC            PPDB Motif GCCCA PLACE Motif

AtREG376   AAAGCCCA           PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407    AAGCCCAA          PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG402     AGCCCAAT         PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG461      GCCCAATG        PPDB Motif GCCCA PLACE Motif

AtREG551         CAATGGGC     PPDB Motif GCCCA PLACE Motif

AtREG361          AATGGGCC    PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490           ATGGGCCA   PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG437            TGGGCCAT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG479             GGGCCATA PPDB Motif GCCCA PLACE Motif GGGCC

REG GGCCTTAC - 1768947 1768954 -830 -837

AtREG530 GGCCTTAC PPDB Motif PLACE Motif

Type	Sequence	Annotation	Genome position	Position from initiation codon
			Strand	Start	End	Start	End
REG	`ATCCAACGG`		-	1768729	1768737	-612	-620
	AtREG586	`ATCCAACG`		PPDB Motif	`CCAACGG`	PLACE Motif
	AtREG554	`TCCAACGG`		PPDB Motif	`CCAACGG`	PLACE Motif	`YAACKG, CNGTTR`
REG	`TAGGGCCCACA`		-	1768813	1768823	-696	-706
	AtREG387	`TAGGGCCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
	AtREG400	`AGGGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG612	`GGCCCACA`	DREB1Aox	PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
REG	`TAAAAGCCCAATGGGCCATA`		-	1768926	1768945	-809	-828
	AtREG549	`TAAAAGCC`		PPDB Motif		PLACE Motif
	AtREG409	`AAAAGCCC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG376	`AAAGCCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG407	`AAGCCCAA`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG402	`AGCCCAAT`		PPDB Motif	`GCCCA`	PLACE Motif	`TGGGCY`
	AtREG461	`GCCCAATG`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG551	`CAATGGGC`		PPDB Motif	`GCCCA`	PLACE Motif
	AtREG361	`AATGGGCC`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG490	`ATGGGCCA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG437	`TGGGCCAT`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC, TGGGCY`
	AtREG479	`GGGCCATA`		PPDB Motif	`GCCCA`	PLACE Motif	`GGGCC`
REG	`GGCCTTAC`		-	1768947	1768954	-830	-837
	AtREG530	`GGCCTTAC`		PPDB Motif		PLACE Motif

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

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 CTCTCTTTCTCTCTCCC + 1769025 1769041 AT1G05860.1

Y Patch CCTTCTTCTTCC + 1769085 1769096 AT1G05860.1

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	`CTCTCTTTCTCTCTCCC`	+	1769025	1769041	AT1G05860.1
Y Patch	`CCTTCTTCTTCC`	+	1769085	1769096	AT1G05860.1
GA	None	None	None
Inr	None	None	None

REG information

Type Sequence Annotation Genome position Gene model

Strand Start End

REG TGTGGGCCCTA + 1768813 1768823 AT1G05860.1

AtREG612 TGTGGGCC    DREB1Aox PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG400   TGGGCCCT PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG387    GGGCCCTA PPDB Motif GCCCA PLACE Motif GGGCC

REG TATGGCCCATTGGGCTTTTA + 1768926 1768945 AT1G05860.1

AtREG479 TATGGCCC             PPDB Motif GCCCA PLACE Motif GGGCC

AtREG437 ATGGCCCA            PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG490   TGGCCCAT           PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG361    GGCCCATT          PPDB Motif GCCCA PLACE Motif GGGCC, TGGGCY

AtREG551     GCCCATTG         PPDB Motif GCCCA PLACE Motif

AtREG461        CATTGGGC      PPDB Motif GCCCA PLACE Motif

AtREG402         ATTGGGCT     PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG407          TTGGGCTT    PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG376           TGGGCTTT   PPDB Motif GCCCA PLACE Motif TGGGCY

AtREG409            GGGCTTTT PPDB Motif GCCCA PLACE Motif

AtREG549             GGCTTTTA PPDB Motif PLACE Motif

REG GTAAGGCC + 1768947 1768954 AT1G05860.1

AtREG530 GTAAGGCC PPDB Motif PLACE Motif