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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttacaccgacattcaaattttttcgaacacaaatatttaggctaaaggtctttattgttctttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAAGAATAATCTGGTCCAGTTGGTAGGAAATAATGGGCACACTTGCTTGGTT

Basic information

species Oryza sativa
transcript LOC_Os12g10784.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g10784.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G168510_T01 (Zea mays), 3'ss of exon 6
gtaagttacaccgacattcaaattttt---tcgaacacaaata--tttag-----gctaaaggtctttattgttctttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAAGAATAATCTGGTCCAGTTGGTAGGAAATAATGGGCACACTTGCTTGGTT
|||||||  |    | |  | || ||     | || |  | ||  ||||      | | |    |  | || | | |  | |||||||||| |||||||||||||||||| |||||||||| ||||| || ||| | || | ||||| |   |||| ||| ||  |    ||   | | | |||  
gtaagtttgatatccttcaatatattcaagccaaatatcagtaaatttaccctttgtttatccccccttttctccatcatgtgaagCGAGTTACCAAGGGAAAGAAGCCATTCAAGATCGACCTCACTCCGTTCCAGGAGTGATCTGCTTTGGTTGATAGAAAGCACAATGCCACCATCCATGGAA
















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|88258518|gb|CI361104.1|CI361104
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCTCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|88505479|gb|CI432985.1|CI432985
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGGGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|88253440|gb|CI352066.1|CI352066
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|163925412|gb|EG711549.1|EG711549
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|86841827|gb|CI337475.1|CI337475
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|4714258|gb|AU058225.1|AU058225
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|88295502|gb|CI527865.1|CI527865
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|12693436|gb|AU173569.1|AU173569
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|86603000|gb|CI357364.1|CI357364
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAACCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|88836262|gb|CI371367.1|CI371367
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAACCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|11442603|gb|BF430506.1|BF430506
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|86833012|gb|CI333611.1|CI333611
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|33672946|gb|CF301185.1|CF301185
EST:     CCATTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|88473662|gb|CI410933.1|CI410933
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|86526749|gb|CI166955.1|CI166955
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCGCCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|33688394|gb|CF316633.1|CF316633
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|7404274|gb|AU066118.2|AU066118
EST:     GGCCA-TGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCNAA
genomic: GGCCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
EST: gi|86839037|gb|CI330405.1|CI330405
EST:     CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCT                         CGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA
genomic: CCACTGCGCAATTTGGAGGAGCTATTAGAGGAGCTGATTGCAATTGCTgtaagttaca ... ttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttttcgaacacaaatatttaggctaaaggtctttattgttctttctttgaagCGAGTCACCAAGGGAAAGAAGCCACTCAAGATCGATCTCACCCCCTTCAAAGAATAATCTGGTCCAGTTGGTAGGAAATAATGGGCACACTTGCTTGGTT
                       ggctaaa  putative branch site (score: 3)
                                tctttattgttctttc  putative PPT
         aacacaaatattta  TA-rich tract