Sequence
atgc intronic sequence ATGC exonic sequence...tgatttcctactactacttcaaaacaattaggtcagtttagccaatttctcttttgccatggctatatttgccgacaaggagttggattcttttgtgcagAAAAAGTTTCTCCGAATTCGATCCACGGCTAGTTGCTCCTACATGTCTGTATCTGGCCTCCAAAGCAGAAGAAAGTACAGTGCAGGCTAAGCTTCTTGTT
Basic information
species | Physcomitrella patens |
transcript | PP1S427_18V6.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S427_18V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA08G46170.2 (Glycine max), 3'ss of exon 5
---tgatttcctactactacttcaaa-acaattaggtcagtttagccaatttctcttttgccatggctatatttgccgacaaggagttggattcttttgt--gcagAAAAAGTTTCTCCGAATTCGATCCACGGCTAGTTGCTCCTACATGTCTGTATCTGGCCTCCAAAGCAGAAGAAAGTACAGTGCAGGCTAAGCTTCTTGTT
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ttatactatcttcgtctgaccctgaacgtagtagtatatgcctaataaacttccctt--aacaag----tgtcaactgatgactatcttcattttttcatttgaagGAAGAGTATGGCTGAATATGATCCACGCTTGGTAGCTCCAACATGCTTGTACCTGGCATCAAAAGCAGAAGAAAGCACAGTGCAGGCTCGGCTTCTTGTA
upper sequence: PP1S427_18V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA18G33140.1 (Glycine max), 3'ss of exon 4
tgatttcctacta-ctacttcaaaacaattaggtcagtttagccaatttctcttttgccatggcta-tatttgccgacaaggagttggattcttttgt--gcagAAAAAGTTTCTCCGAATTCGATCCACGGCTAGTTGCTCCTACATGTCTGTATCTGGCCTCCAAAGCAGAAGAAAGTACAGTGCAGGCTAAGCTTCTTGTT
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----ataatactatcttcttctgaccctggaagttgtagtatatgcctaataaacttccttaacaagtgtcaactgatgactatcttcattttttcatttgaagGAAGAGTATGACTGAATATGATCCACGTTTGGTAGCTCCAACATGCTTGTACCTGGCATCAAAAGCAGAAGAAAGCACAGTGCAGGCTCGGCTTCTTGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctcttttgccatggctatatttgccgacaaggagttggattcttttgtgcagAAAAAGTTTCTCCGAATTCGATCCACGGCTAGTTGCTCCTACATGTCTGTATCTGGCCTCCAAAGCAGAAGAAAGTACAGTGCAGGCTAAGCTTCTTGTT
ttcttttgt CT-rich tract
tatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatttcctactactacttcaaaacaattaggtcagtttagccaatttctcttttgccatggctatatttgccgacaaggagttggattcttttgtgcagAAAAAGTTTCTCCGAATTCGATCCACGGCTAGTTGCTCCTACATGTCTGTATCTGGCCTCCAAAGCAGAAGAAAGTACAGTGCAGGCTAAGCTTCTTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA