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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgggcaaagggagaggagttaaaatagttattcagtttaatagtcatatattttatgattatttcaacctggatagtcaactgactgtggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTCCAGAACTGTTTTGACCGTGCACCACCTGTTCCATATAGTGAGATTGAGT

Basic information

species Oryza sativa
transcript LOC_Os07g12530.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g12530.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G031780_T02 (Zea mays), 3'ss of exon 2
gatgggcaaagggagaggagttaaaatagttattcagtttaatagtcatatattttatgattatttcaacctggatagtcaactgactgtg--gtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTCCAGAACTGTTTTGACCGTGCACCACCTGTTCCATATAGTGAGATTGAGT
        | ||   |  | ||    || || || |    |||  |  |  |  |||||||  |||   |   ||||| ||||  ||||||   || ||||||| ||||| ||||| |||||||||||||||||||| ||||| |||||||||||||| || |||||||  |||||| |||| ||||||   | |||||| |
atccaatgatggtgtaccatttctgctacttctttaaa--aatgatgttgcaaattatgatcgtttgggcactgatagccaaccaactgtgtgatgatgcagTTTGTAGCATCTGCGCCAACTTTGTTTCCTGCAGAATATGTTGAGGAATTCCAGAAATGCTTTGACCAAGCACCAGCTGTCCCATATGACGTGATTGAAT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|29615296|gb|CB620308.1|CB620308
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29615293|gb|CB620305.1|CB620305
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29615266|gb|CB620278.1|CB620278
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29619070|gb|CB624082.1|CB624082
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29615258|gb|CB620270.1|CB620270
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29615291|gb|CB620303.1|CB620303
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATTTAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29615505|gb|CB620517.1|CB620517
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATTTAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29615222|gb|CB620235.1|CB620235
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCTAGCTAGGTCAG                         TTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
EST: gi|29615327|gb|CB620339.1|CB620339
EST:     TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAG                         TTCGTAGCTTCTGCGCCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC
genomic: TTAGAAGGCTTTTTGAGCGCATGGGTGCAACTTATATCAAGCTAGGTCAGgtaaggacat ... ggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatatattttatgattatttcaacctggatagtcaactgactgtggtggtgcagTTCGTAGCTTCTGCACCAACTTTGTTTCCTGCAGAGTATGTCGAGGAATTCCAGAACTGTTTTGACCGTGCACCACCTGTTCCATATAGTGAGATTGAGT
                                   aactgac  putative branch site (score: 2)
     tattttatgattattt  TA-rich tract