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...ttgattcttgtaatatgtttcatcattgttcttgtcttattgaaatatgactactctttgcatggacaatagcatctaatggcttgcttcttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCCCCATGCAAGAAAGGAGCATGTTTGATCATGTCACCTGCAACAGATCAG
species | Oryza sativa |
transcript | LOC_Os06g20370.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
EST: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTAGGGATCTCATGGATGCCEST: gi|88451089|gb|CI534082.1|CI534082
genomic: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: CACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCEST: gi|58679204|gb|CK067891.1|CK067891
genomic: CACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCEST: gi|58673199|gb|CK061885.1|CK061885
genomic: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCEST: gi|88286796|gb|CI520106.1|CI520106
genomic: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: GACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCEST: gi|58595567|gb|CK006095.1|CK006095
genomic: GACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: GAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCEST: gi|44677506|gb|CR290940.1|CR290940
genomic: CAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAG-CAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGC
EST: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCEST: gi|218497048|gb|FG946045.1|FG946045
genomic: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCEST: gi|300215846|gb|HO088472.1|HO088472
genomic: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCEST: gi|58673988|gb|CK062674.1|CK062674
genomic: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
EST: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAG CTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
genomic: ACAAGACTGTAGCCACACTTAATGAAGACAAAAAGTCAAGACTAAGCAAGgtaaagaaca ... ttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCC
tatgactactctttgcatggacaatagcatctaatggcttgcttcttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCCCCATGCAAGAAAGGAGCATGTTTGATCATGTCACCTGCAACAGATCAG
atctaat putative branch site (score: 23)
cttgcttcttgttctc putative PPT
atctaat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttgattcttgtaatatgtttcatcattgttcttgtcttattgaaatatgactactctttgcatggacaatagcatctaatggcttgcttcttgttctcagCTTCAAGAGCTTGCTGGTCAACTCTACGATCTTTGGGATCTCATGGATGCCCCCATGCAAGAAAGGAGCATGTTTGATCATGTCACCTGCAACAGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
-tgattct
- - - - - - - -tgtttca
- - - - - - - - - - - - -ttgttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgcttc