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' |
...actaagaggaaatgagaaagtattagaaacatattctgaaatatctgttctgaagaagattcaacttacacacctcaaacattatggactgaaacttcagGACTTAGTGGCGAGGAAGGCTGATCATTCAAGGGCGGTGCTGGCAGACTTGTTATATGGGCTTTTAAAATTTGAGCCATCAGAGCGTCTTACTGCCCAAG
species | Oryza sativa |
transcript | LOC_Os01g40840.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
EST: CTGTTTCAAGAGAGAGTATCAGAGCAGTCAAAAAACTAGATCGGCTAAAG GACTTAGTGGCGAGGAAGGCTGATCATTCAAGGGCGGTGCTGGCAGACTTGEST: gi|86493399|gb|CI136032.1|CI136032
genomic: CTGTTTCAAGAGAGAGTATCAGAGCAGTCAAAAAACTAGATCGGCTAAAGgttttggttc ... gaaacttcagGACTTAGTGGCGAGGAAGGCTGATCATTCAAGGGCGGTGCTGGCAGACTTG
EST: CTGTTTCAAGAGAGAGTATCAGAGCAGTCAAAAAACTAGATCGGCTAAAG GACTTAGTGGCGAGGAAGGCTGATCATTCAAGGGCGGTGCTGGCAGACTTG
genomic: CTGTTTCAAGAGAGAGTATCAGAGCAGTCAAAAAACTAGATCGGCTAAAGgttttggttc ... gaaacttcagGACTTAGTGGCGAGGAAGGCTGATCATTCAAGGGCGGTGCTGGCAGACTTG
tgttctgaagaagattcaacttacacacctcaaacattatggactgaaacttcagGACTTAGTGGCGAGGAAGGCTGATCATTCAAGGGCGGTGCTGGCAGACTTGTTATATGGGCTTTTAAAATTTGAGCCATCAGAGCGTCTTACTGCCCAAG
aacttac putative branch site (score: 11)
aaacattat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| actaagaggaaatgagaaagtattagaaacatattctgaaatatctgttctgaagaagattcaacttacacacctcaaacattatggactgaaacttcagGACTTAGTGGCGAGGAAGGCTGATCATTCAAGGGCGGTGCTGGCAGACTTGTTATATGGGCTTTTAAAATTTGAGCCATCAGAGCGTCTTACTGCCCAAG
- -aagaggaa
- - - - - -atgagaaa
- - - - - - - - - - - - agaaaca
- - - - - - - - - - - - - - - - attctga
- - - - - - - - - - - - - - - - - - - - - - - - - -gaagaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaaca