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' | 11 5' 3' | 12 5' 3' | 13 5' 3' | 14 5' 3' | 15 5' 3' | 16 5' 3' | 17 5' 3' | 18 5' 3' | 19 5' 3' | 20 5' 3' |
21 5' 3' |
gtatgctcactacctttttcattatgtgttattcttcttgagagtgcacagtacaaaagaaggggtatctttcttctctgccaccaccatcatagttctgtgaacctaaagtattccttgctatgccacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTGGCCCTGACTCTTTAGATACTGGGAAGTTTGAAGAAGCCTGTGGTGTAG
species | Oryza sativa |
transcript | LOC_Os01g09000.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACNATATTGTGTCAACGAAG ATAAAGAATCCCTNCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACEST: gi|89161518|gb|CI099490.1|CI099490
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAAT-CCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATAC
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|88994745|gb|CI036326.1|CI036326
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|58672280|gb|CK060966.1|CK060966
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|15846919|gb|BI795195.1|BI795195
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: TTGTCCATCGTCCTGTACTCATTGACGTATATTGTGTCAGACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCGTGTCATTCCTTACTAATAEST: gi|88311944|gb|CI577550.1|CI577550
genomic: TTGTCCATCGTCCTGTACTCATTGAC-TATATTGTGTCA-ACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTC-TGTCATTCCTTACTAATA
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGEST: gi|88351919|gb|CI625919.1|CI625919
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTG
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGGAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|86826937|gb|CI268818.1|CI268818
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|88454226|gb|CI567831.1|CI567831
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTC-TGTA-TCATTGACTATATTGTGTCAAGGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTAATTCCTTACTAATACTEST: gi|88294826|gb|CI604698.1|CI604698
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTEST: gi|58663041|gb|CK051727.1|CK051727
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|58691015|gb|CK079702.1|CK079702
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|88903715|gb|CI089253.1|CI089253
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCTATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|66921782|gb|CX108630.1|CX108630
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTEST: gi|58671495|gb|CK060181.1|CK060181
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
EST: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAG ATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
genomic: ATGCGCTTGTCCATCGTCCTGTACTCATTGACTATATTGTGTCAACGAAGgtatgctcac ... cacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACT
caccaccatcatagttctgtgaacctaaagtattccttgctatgccacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTGGCCCTGACTCTTTAGATACTGGGAAGTTTGAAGAAGCCTGTGGTGTAG
acctaaa putative branch site (score: 14)
ccacttttc putative PPT
taaagtatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtatgctcactacctttttcattatgtgttattcttcttgagagtgcacagtacaaaagaaggggtatctttcttctctgccaccaccatcatagttctgtgaacctaaagtattccttgctatgccacttttcagATAAAGAATCCTGCACAACTAGATGCTGCTCTGTCATTCCTTACTAATACTGGCCCTGACTCTTTAGATACTGGGAAGTTTGAAGAAGCCTGTGGTGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC