1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' |
...atgaacatgctgtgggaatggcattagacagatacactgaacacataacattctgctttattctgctgactgactgacttccgtgcaggcggagaagcagATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGAAGGGCGCGCCGT
species | Oryza sativa |
transcript | LOC_Os09g27420.2 |
intron # | 4 |
splice site | 3' |
intron type | U12 (go to U12 genes for details) |
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGGCGGAGAAGCAGEST: gi|58689176|gb|CK077863.1|CK077863
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCT-----------GAA-CAGgtatccttgc ...
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG GEST: gi|58689176|gb|CK077863.1|CK077863
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ggagaagcag-
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG GEST: gi|58689176|gb|CK077863.1|CK077863
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ggagaagcag-
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG GEST: gi|58689176|gb|CK077863.1|CK077863
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ggagaagcag-
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG GEST: gi|58689176|gb|CK077863.1|CK077863
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ggagaagcag-
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG GEST: gi|87010814|gb|CI312506.1|CI312506
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ggagaagcag-
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGGCGGAGAAGCAGEST: gi|86436750|gb|CI118472.1|CI118472
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCT-----------GAA-CAGgtatccttgc ...
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGGCGGAGAAGCAGEST: gi|88956425|gb|CI092686.1|CI092686
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCT-----------GAA-CAGgtatccttgc ...
EST: GGTGCTAGCGGCGTTGAATACTCTGAACAG ATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGEST: gi|86517665|gb|CI157871.1|CI157871
genomic: GGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ggagaagcagATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCG
EST: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGGCGGAGAAGCAG
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCT-----------GAA-CAGgtatccttgc ...
taacattctgctttattctgctgactgactgacttccgtgcaggcggagaagcagATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGAAGGGCGCGCCGT
ttccgtgca putative branch site
tttattct 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| atgaacatgctgtgggaatggcattagacagatacactgaacacataacattctgctttattctgctgactgactgacttccgtgcaggcggagaagcagATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGAAGGGCGCGCCGT
- - -catgctg
- - - - - - - - - tggcatt
- - - - - - - - - - - - - - - gatacac
- - - - - - - - - - - - - - - - - - - gaacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcaggc