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...ttatagcatttggcccatcttgattgcattccttgaaacaattgagcatgtgcattattgtttataccttaatatctggcacgcccaaaattgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATGTGGCCACCTTCCCCATGAAGATGTACAATGAGTTGAGGAGAGTGGAAC
species | Oryza sativa |
transcript | LOC_Os09g39380.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATEST: gi|2310895|gb|C27050.1|C27050
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATEST: gi|86849232|gb|CI297724.1|CI297724
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATEST: gi|58686362|gb|CK075049.1|CK075049
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATEST: gi|58596860|gb|CK007388.1|CK007388
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATEST: gi|38477357|gb|CF961490.1|CF961490
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATEST: gi|33802788|gb|CF327265.1|CF327265
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATEST: gi|428157|gb|D24305.1|D24305
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGCATTAAG NCCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTEST: gi|33796378|gb|CF324056.1|CF324056
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCT
EST: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAG ACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
genomic: TGACTACTCTCTTTAAAGGTCAAGTTGCTGAGGAGAAAGGTGGAATTAAGgttagtttgc ... ttgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGAT
gcatgtgcattattgtttataccttaatatctggcacgcccaaaattgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATGTGGCCACCTTCCCCATGAAGATGTACAATGAGTTGAGGAGAGTGGAAC
ccttaat putative branch site (score: 134)
attattgtttatacct 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttatagcatttggcccatcttgattgcattccttgaaacaattgagcatgtgcattattgtttataccttaatatctggcacgcccaaaattgtatgcagACCGATGCTTTCTTTGAAACAAGTGTTCCTGGAGTCTATGCTGTCGGTGATGTGGCCACCTTCCCCATGAAGATGTACAATGAGTTGAGGAGAGTGGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - -gcatttg
- - - - - - - - - - - - tgcattc
- - - - - - - - - - - - - - - - - gaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - -gtgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacgccc