PlantPromoterDB promoter information of AT3G09390.1
Summary of Gene (AT3G09390.1)
|
Overview
|
Focused view (chromosome 3: 2901788-2900589)
|
Genome position
from initiation codon AT3G09410.3 TSS from cDNA TSS information AT3G09390.1 5'->3' (-) Promoter sequence AT3G09430.1
TSS from cDNA TSS information 3'->5' (+) Promoter sequence TSS tag distribution(+)
TSS tag distribution(-)
|
|
|
|
Promoter Summary of AT3G09390.1
TSS information
| Type | Sequence | TPM score | Genome position | Position from initiation codon | |
| Strand | Position | Position | |||
| TSS peak | A | 44 | - | 2890224 | -36 |
TSS information from cDNA
| Type | Sequence | Score | Genome position | Position from initiation codon | |
| Strand | Position | Position | |||
| TSS clone | C | clone | - | 2890229 | -41 |
| TSS clone | A | clone | - | 2890228 | -40 |
| TSS clone | T | clone | - | 2890227 | -39 |
| TSS clone | T | clone | - | 2890223 | -35 |
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 | CTTATAAATT | - | 2890256 | 2890265 | -68 | -77 |
| Y Patch | CTTCCTCT | - | 2890242 | 2890249 | -54 | -61 |
| 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 | TTGAACCG | - | 2890377 | 2890384 | -189 | -196 | |||
| AtREG640 | TTGAACCG | PPDB Motif | AACCG(G/A) | 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 | |
TSS information from cDNA
| Type | Sequence | Score | Genome position | Gene model | |
| Strand | Position | ||||
| TSS clone | A | clone | - | 2901019 | AT3G09410.3, AT3G09410.1 |
| TSS clone peak | T | clone | - | 2901014 | AT3G09410.3, AT3G09410.1 |
| TSS clone | A | clone | - | 2901006 | AT3G09410.3, AT3G09410.1 |
| TSS clone | T | clone | - | 2901005 | AT3G09410.3, AT3G09410.1 |
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 | TCTTCTTC | - | 2900986 | 2900993 | AT3G09410.1, AT3G09410.3 | |
| Y Patch | TTCTTCTTCT | - | 2900996 | 2901005 | AT3G09410.1, AT3G09410.3 | |
| Y Patch | TCTCTTCCT | - | 2901010 | 2901018 | AT3G09410.1, AT3G09410.3 | |
| GA | None | None | None | |||
| Inr | None | None | None | |||
REG information
| Type | Sequence | Annotation | Genome position | Gene model | |||||
| Strand | Start | End | |||||||
| REG | GTTGGGCT | - | 2901076 | 2901083 | AT3G09410.1, AT3G09410.3 | ||||
| AtREG574 | GTTGGGCT | PPDB Motif | GCCCA, CCAACGG | PLACE Motif | TGGGCY | ||||
| REG | TTAAACCGGT | - | 2901116 | 2901125 | AT3G09410.1, AT3G09410.3 | ||||
| AtREG473 | TTAAACCG | PPDB Motif | AACCG(G/A) | PLACE Motif | |||||
| AtREG412 | TAAACCGG | PPDB Motif | AACCG(G/A) | PLACE Motif | |||||
| AtREG436 | AAACCGGT | PPDB Motif | AACCG(G/A) | PLACE Motif | |||||
| REG | TTCCGGTTAAA | - | 2901147 | 2901157 | AT3G09410.1, AT3G09410.3 | ||||
| AtREG534 | TTCCGGTT | PPDB Motif | AACCG(G/A) | PLACE Motif | |||||
| AtREG621 | TCCGGTTA | PPDB Motif | AACCG(G/A) | PLACE Motif | CNGTTR | ||||
| AtREG501 | CCGGTTAA | PPDB Motif | AACCG(G/A) | PLACE Motif | CNGTTR | ||||
| AtREG645 | CGGTTAAA | PPDB Motif | AACCG(G/A) | PLACE Motif | CNGTTR | ||||
| REG | TAATTGGG | - | 2901195 | 2901202 | AT3G09410.1, AT3G09410.3 | ||||
| AtREG600 | TAATTGGG | PPDB Motif | GCCCA | PLACE Motif | |||||
| REG | ACGACGCC | - | 2901282 | 2901289 | AT3G09410.1, AT3G09410.3 | ||||
| AtREG537 | ACGACGCC | PPDB Motif | PLACE Motif | ||||||