1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' |
...ctttgtagtgaaaacattgccaaggtgatgttctttctactcattgtttgaaactattgtatacaatttggcccctttttttttcctgagctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCCCCTTCATTTGTATGTGCTGATCGTGCTGACAAGAGAAAGGAG
species | Oryza sativa |
transcript | LOC_Os03g58480.1 |
intron # | 3 |
splice site | 3' |
intron type | U12 (go to U12 genes for details) |
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|218492089|gb|FG945536.1|FG945536
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|58597056|gb|CK007584.1|CK007584
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|58657562|gb|CK046242.1|CK046242
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|58665629|gb|CK054315.1|CK054315
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|33675922|gb|CF304161.1|CF304161
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACEST: gi|218500899|gb|FG952816.1|FG952816
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAAC
EST: CTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|29628405|gb|CB633416.1|CB633416
genomic: CTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: ATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|58667605|gb|CK056291.1|CK056291
genomic: ATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|27554048|gb|CA997948.1|CA997948
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCEST: gi|33802668|gb|CF327205.1|CF327205
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGGCTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGGTGTTGEST: gi|33676020|gb|CF304259.1|CF304259
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGG-TGTTG
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCEST: gi|33675598|gb|CF303837.1|CF303837
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGC
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAEST: gi|29628404|gb|CB633415.1|CB633415
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAA
EST: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTC AACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
genomic: GATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCgtatccttct ... ctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGC
gtttgaaactattgtatacaatttggcccctttttttttcctgagctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCCCCTTCATTTGTATGTGCTGATCGTGCTGACAAGAGAAAGGAG
ttcctgagc putative branch site
cccctttttttttcct CT-rich tract
tattgtatacaattt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ctttgtagtgaaaacattgccaaggtgatgttctttctactcattgtttgaaactattgtatacaatttggcccctttttttttcctgagctgtgtaaagAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCCCCTTCATTTGTATGTGCTGATCGTGCTGACAAGAGAAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - -gaaaacat
- - - - - - - - - - - -ggtgatg
- - - - - - - - - - - - - - - - - - - - - - tgtttga