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gtttgtctttagacagatcgatttatgttgcacttgttcagtgtgttaatttgtgtgttctggtggcgattgatgaacccttcatttcttgaatgatcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAGACAAGAGATATAAGAACCGTGAGCTGCAAACAATGCGAGTTCTTGACC
species | Oryza sativa |
transcript | LOC_Os05g04340.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|29628929|gb|CB633940.1|CB633940
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCATEST: gi|88298568|gb|CI563563.1|CI563563
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: CATGGCCGAGCCGTGTCGTANGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGGAGACTGGTGGCTATAAAGAAGGTTCTTTEST: gi|58601571|gb|CK012099.1|CK012099
genomic: CATGGCCGAGC-GTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTG-AGACTG-TGGCTATAAAGAAGGTTCTT-
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCEST: gi|58663289|gb|CK051975.1|CK051975
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGC
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|33658344|gb|CF280957.1|CF280957
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|29630931|gb|CB635940.1|CB635940
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|58603162|gb|CK013690.1|CK013690
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|29626488|gb|CB631499.1|CB631499
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: CATGGGCC-AGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|29629558|gb|CB634567.1|CB634567
genomic: CATGG-CCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|25798115|gb|CA754076.1|CA754076
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAEST: gi|58598716|gb|CK009244.1|CK009244
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
EST: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAG GCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCCGAGCGTGTCGTAGGTCATGGATCCTTTGGAACTGTTTTCCAGgtttgtcttt ... tcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAA
tgtgtgttctggtggcgattgatgaacccttcatttcttgaatgatcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAGACAAGAGATATAAGAACCGTGAGCTGCAAACAATGCGAGTTCTTGACC
gattgat putative branch site (score: 47)
ttcattt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtttgtctttagacagatcgatttatgttgcacttgttcagtgtgttaatttgtgtgttctggtggcgattgatgaacccttcatttcttgaatgatcttgtatagGCCAAGTGCCTGGAAACCGGTGAGACTGTGGCTATAAAGAAGGTTCTTCAAGACAAGAGATATAAGAACCGTGAGCTGCAAACAATGCGAGTTCTTGACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC