1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' |
gtgcgtcatacctcattgatcacctgtagtttacatttttttaccaactttttattacatttatttcactgaggtgtggataattcagattattattattatttaaaaaaaaactgttaatgcaattaacaccatttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACCAAGTCTCTTTGGGAGTACGCTGGAGGAGCAAGCAATTGTCGATCAGTG
species | Physcomitrella patens |
transcript | PP1S46_325V6.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: TGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208349859|gb|DC905983.1|DC905983
genomic: TGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|100387711|gb|BY951711.1|BY951711
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|37828943|gb|BJ586955.1|BJ586955
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: AACAAGTTNCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|18349970|gb|BJ182021.1|BJ182021
genomic: AACAAGTT-CCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|18356177|gb|BJ188236.1|BJ188236
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCT-TATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|37833115|gb|BJ591127.1|BJ591127
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCT-TATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|18348858|gb|BJ180907.1|BJ180907
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208387810|gb|DC941379.1|DC941379
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208365936|gb|DC955483.1|DC955483
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: TGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208393393|gb|DC942491.1|DC942491
genomic: TGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|162269338|gb|FC444816.1|FC444816
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|37836448|gb|BJ594456.1|BJ594456
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: TTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCNGGAAATACAAAGGCCAGGGACEST: gi|208379946|gb|DC927672.1|DC927672
genomic: TTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|18346616|gb|BJ178661.1|BJ178661
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208353247|gb|DC913921.1|DC913921
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|162269339|gb|FC444817.1|FC444817
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208363225|gb|DC954383.1|DC954383
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|15327526|gb|BI488280.1|BI488280
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208378933|gb|DC922779.1|DC922779
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: GACTTTCATCTGTATG -ATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208344704|gb|DC905153.1|DC905153
genomic: GACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACEST: gi|208380990|gb|DC919872.1|DC919872
genomic: CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
EST: TCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG AATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
genomic: TCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATGgtgcgtcata ... ttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGAC
tattattattatttaaaaaaaaactgttaatgcaattaacaccatttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACCAAGTCTCTTTGGGAGTACGCTGGAGGAGCAAGCAATTGTCGATCAGTG
aattaac putative branch site (score: 21)
ttattatttaaaaaaa TA-rich tract
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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgcgtcatacctcattgatcacctgtagtttacatttttttaccaactttttattacatttatttcactgaggtgtggataattcagattattattattatttaaaaaaaaactgttaatgcaattaacaccatttgtgcgcagAATCCCGAGCTATAGTGCGTTACATAGCCCGGAAATACAAAGGCCAGGGACCAAGTCTCTTTGGGAGTACGCTGGAGGAGCAAGCAATTGTCGATCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA