1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' | 9 5' 3' | 10 5' 3' | 11 5' 3' | 12 5' 3' | 13 5' 3' | 14 5' 3' | 15 5' 3' | 16 5' 3' | 17 5' 3' | 18 5' 3' | 19 5' 3' | 20 5' 3' |
21 5' 3' | 22 5' 3' | 23 5' 3' |
gtaataatttatcgacattttatttgaagttgtacagatcgttgttacatttgggtgattttactgattgcgagtggaaattactctgcagaaagtttctagatagcaagaaagtaattctgtgccgagattttaaagaactgatcctggttcatgatatatgtactgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCGTAGAGGAGACGTTTGAAGACGCAGAACAGAGTGCGGATGGTAAGAGTG
species | Physcomitrella patens |
transcript | PP1S61_1V6.1 |
intron # | 23 |
splice site | 3' |
intron type | U2 |
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCEST: gi|37827500|gb|BJ585512.1|BJ585512
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTC
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCEST: gi|6166859|gb|AW145123.1|AW145123
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTC
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCAEST: gi|162254475|gb|FC430675.1|FC430675
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCA
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCEST: gi|162234002|gb|FC410710.1|FC410710
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTC
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCEST: gi|67698796|gb|BJ959029.1|BJ959029
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTC
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCEST: gi|162176146|gb|FC351901.1|FC351901
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTC
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTEST: gi|162234001|gb|FC410709.1|FC410709
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGT
EST: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAG AACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTC
genomic: TGGACATAACTGGAGACGAGCCTGCAGAAAACGGCCATGGTTTTGAAGAGgtaataattt ... ctgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTC
tgtgccgagattttaaagaactgatcctggttcatgatatatgtactgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCGTAGAGGAGACGTTTGAAGACGCAGAACAGAGTGCGGATGGTAAGAGTG
aactgat putative branch site (score: 10)
attttaaagaa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaataatttatcgacattttatttgaagttgtacagatcgttgttacatttgggtgattttactgattgcgagtggaaattactctgcagaaagtttctagatagcaagaaagtaattctgtgccgagattttaaagaactgatcctggttcatgatatatgtactgaatctagAACGAGGACTTAATAGAAGAGGACGGACAAGAGCAAGATGCTCATCAAGTCGTAGAGGAGACGTTTGAAGACGCAGAACAGAGTGCGGATGGTAAGAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA