1 5' 3' | 2 5' 3' | 3 5' 3' |
gtaagtgtttttttttttttttttttttttttttttgttggtgtgtgtgtgacgagtggctttcgttgagctttggtgcggagtttcgggcgttcgttcctcggggttgtgttctaggagaggaataatgtgtgtgtgtggattgtgagtttttttggatgattgatcgtgcgttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGAAGGACAATAAGAAGGATGACAAGAAGGACGACAAAAAAGACGCTGAGA
species | Physcomitrella patens |
transcript | PP1S494_6V6.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|18348009|gb|BJ180056.1|BJ180056
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|100356224|gb|BY946257.1|BY946257
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|18352926|gb|BJ184981.1|BJ184981
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|100369626|gb|BY948572.1|BY948572
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|100355300|gb|BY965092.1|BY965092
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|162219181|gb|FC396620.1|FC396620
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|100387241|gb|BY970385.1|BY970385
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|162219180|gb|FC396619.1|FC396619
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|100397749|gb|BY990381.1|BY990381
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|100408559|gb|BY974187.1|BY974187
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|37834364|gb|BJ592376.1|BJ592376
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|7584234|gb|AW700131.1|AW700131
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGEST: gi|100446956|gb|CJ971255.1|CJ971255
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
EST: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTAC TGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
genomic: GGCCCTTTCACAGCTTCCAGCCGCTTCACTCTGATGGATCGCTTGATTACgtaagtgttt ... ttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAG
tgtgtgtgtgtggattgtgagtttttttggatgattgatcgtgcgttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGAAGGACAATAAGAAGGATGACAAGAAGGACGACAAAAAAGACGCTGAGA
gattgat putative branch site (score: 2)
agttttttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaagtgtttttttttttttttttttttttttttttgttggtgtgtgtgtgacgagtggctttcgttgagctttggtgcggagtttcgggcgttcgttcctcggggttgtgttctaggagaggaataatgtgtgtgtgtggattgtgagtttttttggatgattgatcgtgcgttgtgtgcagTGGTTCTATCCTAACAAGGATTTACTCAAGTACCCGATTGAGGAGCCCAAGAAGGACAATAAGAAGGATGACAAGAAGGACGACAAAAAAGACGCTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG