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' |
gtaaatgtctaaccttccatgtaccttcacatgcataatggaagctcttgtgcaggtctttctttcttgcatgatgattaattgaacccttgtttgctttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGCTGGAATCTCTATGTCGATCATTACAGGCAGAAAGGAAACAAAGCCCGT
species | Oryza sativa |
transcript | LOC_Os03g17930.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|33809158|gb|CF330463.1|CF330463
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|55412014|gb|CV724390.1|CV724390
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|89166181|gb|CI103271.1|CI103271
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|88955373|gb|CI091465.1|CI091465
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|38479504|gb|CF963613.1|CF963613
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|86436064|gb|CI107297.1|CI107297
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGGG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|88219408|gb|CI218968.1|CI218968
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|29639434|gb|CB644443.1|CB644443
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|86499080|gb|CI141713.1|CI141713
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|58675688|gb|CK064375.1|CK064375
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|88263669|gb|CI366570.1|CI366570
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTCCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|86425721|gb|CI070818.1|CI070818
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAAGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|86498241|gb|CI140874.1|CI140874
genomic: AGAGTAAATGTGAGAATTCAGATGTTGCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: AAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGEST: gi|3767268|gb|AU031378.1|AU031378
genomic: AAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
EST: GCTCTAGTGAAGTTGATTGAGGAG CGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
genomic: GCTCTAGTGAAGTTGATTGAGGAGgtaaatgtct ... ttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAG
aggtctttctttcttgcatgatgattaattgaacccttgtttgctttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGCTGGAATCTCTATGTCGATCATTACAGGCAGAAAGGAAACAAAGCCCGT
gattaat putative branch site (score: 40)
cccttgtttgctttct putative PPT
atgattaatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaaatgtctaaccttccatgtaccttcacatgcataatggaagctcttgtgcaggtctttctttcttgcatgatgattaattgaacccttgtttgctttctccgcagCGTGAGTTAATGAAGAAGCAAGTTGATAAGTTCAAGAATCAAAAAGAGAAGCTGGAATCTCTATGTCGATCATTACAGGCAGAAAGGAAACAAAGCCCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA