1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' |
...cgactgaatctcagagctgtgtgttgttctctatgcacacgtggatacttcaagcttcatttttttcccccttcaataacacaagacgtgctgtttgcagGTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAGGAGGTAGTAGACCCTGCGATGGAGGCCAAGCCAACCAAACGGCAGCTGA
species | Oryza sativa |
transcript | LOC_Os01g41730.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
EST: GACCGGAAGGGATCCAGTTAACTATGGTCGACCTACCGATGAG GTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAGEST: gi|89180073|gb|CI044352.1|CI044352
genomic: GACCGGAAGGGATCCAGTTAACTATGGTCGACCTACCGATGAGgtggacatgc ... ctgtttgcagGTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAG
EST: AAGCAGTGACCGGAAGGGATCCAGTTAACTATGGTCGACCTACCGATGAG GTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAGEST: gi|86528880|gb|CI169086.1|CI169086
genomic: AAGCAGTGACCGGAAGGGATCCAGTTAACTATGGTCGACCTACCGATGAGgtggacatgc ... ctgtttgcagGTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAG
EST: AAGCAGTGACCGGAAGGGATCCAGTTAACTATGGTCGACCTACCGATGAG GTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAG
genomic: AAGCAGTGACCGGAAGGGATCCAGTTAACTATGGTCGACCTACCGATGAGgtggacatgc ... ctgtttgcagGTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAG
tacttcaagcttcatttttttcccccttcaataacacaagacgtgctgtttgcagGTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAGGAGGTAGTAGACCCTGCGATGGAGGCCAAGCCAACCAAACGGCAGCTGA
caataac putative branch site (score: 3)
ttcattttttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| cgactgaatctcagagctgtgtgttgttctctatgcacacgtggatacttcaagcttcatttttttcccccttcaataacacaagacgtgctgtttgcagGTGCACCTGCTGGAGTGGATCAAGCTGATGGCTAGCAGCAGAAGAGCCGAGGAGGTAGTAGACCCTGCGATGGAGGCCAAGCCAACCAAACGGCAGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- -ctgaatc
- - - - - - - - - -tgtgttg
- - - - - - - - - - - - - - - ctatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaca