1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' |
...tgatgcccaaacagaggtatattgttattcactatgtactgtaccaaactcagtatattcagtgcagtgctatagtgctaatatgtaattgcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGATGGTGGGACTGAAGGTTTCAAAGGTCATGCTAGAGTCATCATACCTGG
species | Oryza sativa |
transcript | LOC_Os01g16540.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
EST: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTTGEST: gi|27554355|gb|CA998255.1|CA998255
genomic: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCG
EST: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGEST: gi|29634620|gb|CB639629.1|CB639629
genomic: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCG
EST: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGEST: gi|27576209|gb|CA998903.1|CA998903
genomic: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCG
EST: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGEST: gi|27576520|gb|CA999214.1|CA999214
genomic: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCG
EST: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGEST: gi|58653339|gb|CK042019.1|CK042019
genomic: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCG
EST: GGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAAGGCTATGGTTEST: gi|325493432|gb|JG457956.1|JG457956
genomic: GGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAA-CCTATGGTC
EST: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGEST: gi|66915301|gb|CX102149.1|CX102149
genomic: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCG
EST: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAG AGTATGACTCAGATGACAAACCAATCCCTGAGACGCTTAAACCTATGGTCG
genomic: TTCAATTGAAGCTCGAAGCTATATCAATTCCGTGGCGTGTGGTTTCTTAGgtacatattt ... gcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCG
aaactcagtatattcagtgcagtgctatagtgctaatatgtaattgcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGATGGTGGGACTGAAGGTTTCAAAGGTCATGCTAGAGTCATCATACCTGG
tgctaat putative branch site (score: 21)
taatatgtaatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tgatgcccaaacagaggtatattgttattcactatgtactgtaccaaactcagtatattcagtgcagtgctatagtgctaatatgtaattgcaattgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGATGGTGGGACTGAAGGTTTCAAAGGTCATGCTAGAGTCATCATACCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
tgatgcc
- - - -caaacaga
- - - - - - - - - - - - - - - - - tgtactg
- - - - - - - - - - - - - - - - - - - - - accaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagtgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tagtgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atatgta