PlantPromoterDB promoter information of AT4G39090
Summary of Gene (AT4G39090)
|
Overview
|
Focused view (chromosome 4: 18209876-18208677)
|
Genome position
from initiation codon TSS from cDNA TSS information AT4G39090 5'->3' (-) Promoter sequence AT4G39080.1
TSS from cDNA TSS information 3'->5' (+) Promoter sequence TSS tag distribution(+)
TSS tag distribution(-)
|
|
|
|
Promoter Summary of AT4G39090
TSS information
| Type | Sequence | TPM score | Genome position | Position from initiation codon | |
| Strand | Position | Position | |||
| TSS peak | G | 281 | - | 18217335 | -9 |
TSS information from cDNA
| Type | Sequence | Score | Genome position | Position from initiation codon | |
| Strand | Position | Position | |||
| TSS clone | T | clone | - | 18217481 | -155 |
| TSS clone | A | clone | - | 18217392 | -66 |
| TSS clone | C | clone | - | 18217384 | -58 |
| TSS clone | A | clone | - | 18217381 | -55 |
| TSS clone | A | clone | - | 18217344 | -18 |
| TSS clone | C | clone | - | 18217341 | -15 |
| TSS clone | A | clone | - | 18217339 | -13 |
| TSS clone | A | clone | - | 18217338 | -12 |
| TSS clone | T | clone | - | 18217337 | -11 |
| TSS clone | G | clone | - | 18217335 | -9 |
| TSS clone | C | clone | - | 18217334 | -8 |
| TSS clone | A | clone | - | 18217333 | -7 |
| TSS clone | A | clone | - | 18217332 | -6 |
| TSS clone | A | clone | - | 18217331 | -5 |
| TSS clone | A | clone | - | 18217328 | -2 |
| TSS clone | A | clone | - | 18217327 | -1 |
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 | CTTCCTTC | - | 18217345 | 18217352 | -19 | -26 |
| Y Patch | TCCTTCTCT | - | 18217354 | 18217362 | -28 | -36 |
| 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 | AAACCGAA | - | 18217465 | 18217472 | -139 | -146 | |||
| AtREG568 | AAACCGAA | PPDB Motif | AACCG(G/A) | PLACE Motif | |||||
| REG | AACACGTGGT | - | 18217611 | 18217620 | -285 | -294 | |||
| AtREG590 | AACACGTG | ABA, JA | PPDB Motif | ACGT | PLACE Motif | ACGT, ACGTG, CACGTG, ACACNNG | |||
| AtREG382 | ACACGTGG | ABA | PPDB Motif | ACGT | PLACE Motif | ACGT, ACGTG, CACGTG, ACACNNG | |||
| AtREG544 | CACGTGGT | ABA, DREB1Aox | PPDB Motif | ACGT | PLACE Motif | ACGT, ACGTG | |||
Other Reliable Promoter Summary
TSS information
| Type | Sequence | TPM score | Genome position | Gene model | |
| Strand | Position | ||||
| TSS peak | G | 20 | + | 18209401 | AT4G39080.1 |
TSS information from cDNA
| Type | Sequence | Score | Genome position | Gene model | |
| Strand | Position | ||||
| TSS clone | T | clone | + | 18209402 | AT4G39080.1 |
| TSS clone | G | clone | + | 18209417 | AT4G39080.1 |
| TSS clone | C | clone | + | 18209420 | AT4G39080.1 |
| TSS clone | T | clone | + | 18209421 | AT4G39080.1 |
| TSS clone | T | clone | + | 18209423 | AT4G39080.1 |
| TSS clone | T | clone | + | 18209430 | AT4G39080.1 |
| TSS clone | A | clone | + | 18209432 | AT4G39080.1 |
| TSS clone | T | clone | + | 18209433 | AT4G39080.1 |
| TSS clone | T | clone | + | 18209436 | AT4G39080.1 |
| TSS clone | A | clone | + | 18209438 | AT4G39080.1 |
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 | TCTCTCCTCC | + | 18209391 | 18209400 | AT4G39080.1 | |
| GA | None | None | None | |||
| Inr | None | None | None | |||
REG information
| Type | Sequence | Annotation | Genome position | Gene model | |||||
| Strand | Start | End | |||||||
| REG | CATGGGCCAATATTGGG | + | 18209175 | 18209191 | AT4G39080.1 | ||||
| AtREG504 | CATGGGCC | PPDB Motif | GCCCA, CCATGG | PLACE Motif | GGGCC, TGGGCY | ||||
| AtREG490 | ATGGGCCA | PPDB Motif | GCCCA | PLACE Motif | GGGCC, TGGGCY | ||||
| AtREG484 | TGGGCCAA | PPDB Motif | GCCCA | PLACE Motif | GGGCC, TGGGCY | ||||
| AtREG446 | GGGCCAAT | CK | PPDB Motif | GCCCA | PLACE Motif | GGGCC | |||
| AtREG509 | ATATTGGG | PPDB Motif | PLACE Motif | ||||||
| REG | CCCAATTA | + | 18209222 | 18209229 | AT4G39080.1 | ||||
| AtREG600 | CCCAATTA | PPDB Motif | GCCCA | PLACE Motif | |||||
| REG | ACCGAACCA | + | 18209266 | 18209274 | AT4G39080.1 | ||||
| AtREG451 | ACCGAACC | PPDB Motif | PLACE Motif | ||||||
| AtREG655 | CCGAACCA | PPDB Motif | PLACE Motif | ||||||
| REG | GAAGCCCATTAAAAGCCCAATA | + | 18209280 | 18209301 | AT4G39080.1 | ||||
| AtREG476 | GAAGCCCA | PPDB Motif | GCCCA | PLACE Motif | TGGGCY | ||||
| AtREG378 | AAGCCCAT | PPDB Motif | GCCCA | PLACE Motif | TGGGCY | ||||
| AtREG372 | AGCCCATT | PPDB Motif | GCCCA | PLACE Motif | TGGGCY | ||||
| AtREG357 | GCCCATTA | PPDB Motif | GCCCA | PLACE Motif | |||||
| AtREG396 | CCCATTAA | PPDB Motif | GCCCA | PLACE Motif | TTAATGG | ||||
| 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 | ||||
| AtREG355 | GCCCAATA | PPDB Motif | GCCCA | PLACE Motif | |||||
| REG | GAGCCCAA | + | 18209325 | 18209332 | AT4G39080.1 | ||||
| AtREG533 | GAGCCCAA | PPDB Motif | GCCCA | PLACE Motif | TGGGCY | ||||
| REG | AGGGGTAA | + | 18209334 | 18209341 | AT4G39080.1 | ||||
| AtREG642 | AGGGGTAA | PPDB Motif | ACCCCT | PLACE Motif | |||||