1 5' 3' | 2 5' 3' | 3 5' 3' |
...gtgttaggaccttagattcctgccctagtgctgaatgtcttgatggatatgggttatgcggtatctttcagttcttacaagattgttttttgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGGATACGGTTTGGGTGGCAAGGGCTCCTTCTTCGGATTCGGACGCTTTCA
species | Physcomitrella patens |
transcript | PP1S42_224V6.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100428334|gb|BY977752.1|BY977752
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|162241275|gb|FC416906.1|FC416906
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100441914|gb|BY981137.1|BY981137
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100409864|gb|BY956142.1|BY956142
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100363522|gb|BY966431.1|BY966431
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100390176|gb|BY952584.1|BY952584
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|208355784|gb|DC910550.1|DC910550
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100394423|gb|BY972061.1|BY972061
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100408289|gb|BY974110.1|BY974110
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|162225958|gb|FC400976.1|FC400976
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|208364166|gb|DC943422.1|DC943422
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|18362463|gb|BJ194533.1|BJ194533
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|208380328|gb|DC907653.1|DC907653
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|100410651|gb|BY992202.1|BY992202
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGEST: gi|18330194|gb|BJ162200.1|BJ162200
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
EST: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAG TGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
genomic: GGCCGCTGCTCGGCATGTGACGTTTCAAAGGCAGTGCGATTTACTGTTAGgtatagagcc ... tgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCG
gatatgggttatgcggtatctttcagttcttacaagattgttttttgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGGATACGGTTTGGGTGGCAAGGGCTCCTTCTTCGGATTCGGACGCTTTCA
ttcttac putative branch site (score: 20)
ttgtttttt putative PPT
attgtttttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgttaggaccttagattcctgccctagtgctgaatgtcttgatggatatgggttatgcggtatctttcagttcttacaagattgttttttgtgtggcagTGAGGGCTTCGGAAGAACCAAATGGTGAGGGAGCGGGTGATGACATGAGCGGATACGGTTTGGGTGGCAAGGGCTCCTTCTTCGGATTCGGACGCTTTCA
- - - - - - - - - - - - - - tgctgaa