Sequence
atgc intronic sequence ATGC exonic sequence...tcgttgtatttatgtcactatcagaaatttgtaactgatcgttaagtatctcaagtgctacattgttctttggtcgtcaattttgtaatgtgatatgcagAATGCGTACCGGCAGCAAAGATTTATGCAGGAAGTGACAATACAGTACAATTTATGCAATGAACCGTG
Basic information
species | Physcomitrella patens |
transcript | PP1S55_201V6.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S55_201V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os07g29450.1 (Oryza sativa), 3'ss of exon 8
---------------------------------tcgttgtatttatgtcactat-cagaaatttgtaactgatcgttaagtatctcaagtgctacattgttctttggtc---gtcaa----ttttgtaatgtgat--atgcagAATGCGTACCGGCAGCAAAGATTTATGCAGGAAGTGACAATACAGTACAATTTATGCAATGAACCGTG
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gtaattttctacctcctctttctgttatcaatgttttcatttcaaagacattttacttcactttgcaacatttagtttttgttatcatgagcaatctttgtctatattctgtactaaggtttttttcaatataatctatgcagAATGCGTTACGTCAACAAAGATTTGTTCGGGAAGTCACAATACAGTACAATCTCTGCAACGAGCCATG
upper sequence: PP1S55_201V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 3'ss of exon 7
tcgttgtatttatgtcactatcagaaatt-tgtaactgatcgttaagtatctcaagtgctacattgttctttggtcgtcaatttt----gtaatgtgatatgcagAATGCGTACCGGCAGCAAAGATTTATGCAGGAAGTGACAATACAGTACAATTTATGCAATGAACCGTG
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-----gtaatcacatggattttattaatcatgttagtattgttttatctatttatttgttattataaatgataatcatcttctttgatggtgttttgttcttcagAATGCGTTGCGGCAACAAAGATTTGTACGAGAAGTCACAATACAGTACAACTTATGTAATGAACCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatctcaagtgctacattgttctttggtcgtcaattttgtaatgtgatatgcagAATGCGTACCGGCAGCAAAGATTTATGCAGGAAGTGACAATACAGTACAATTTATGCAATGAACCGTG
aattttgtaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcgttgtatttatgtcactatcagaaatttgtaactgatcgttaagtatctcaagtgctacattgttctttggtcgtcaattttgtaatgtgatatgcagAATGCGTACCGGCAGCAAAGATTTATGCAGGAAGTGACAATACAGTACAATTTATGCAATGAACCGTG
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