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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcttaacattagtttcactttcctatccttcgcatgcttatgaagcaactcttatgataaatgcatgtatttcctgcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTACCATCATGCTCTTTTGAACAAT

Basic information

species Oryza sativa
transcript LOC_Os06g47350.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g47350.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G415846_T01 (Zea mays), 3'ss of exon 2
gtaagtgcttaacattagtttcactttcctatccttcgcatgcttatgaagcaactcttatgataaatgcatgtatttcctgcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTACCATCATGCTCTTTTGAACAAT
|||||| | |||| | |  |  | ||    ||  | | | |   ||    |  | |  |||   |     |||   | |||  |||||||||| | |||||  ||||||||| ||||||| ||||||||||| | | |||| |||||||| ||| |  |||||
gtaagttcgtaac-tcaactctatttcaacatg-tccacctttctacactgttaattctatttcatgcttatgccctacct--ttttccagACTATTTTGAGGGCACTATCACAAGCAGTATCCAAGATAGACACCGTGTATCATCATGCACTTCTACACAAT
















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|29656148|gb|CB652423.1|CB652423
EST:     TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
genomic: TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
EST: gi|29636778|gb|CB641787.1|CB641787
EST:     TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
genomic: TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
EST: gi|29676742|gb|CB673017.1|CB673017
EST:     TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
genomic: TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
EST: gi|88575206|gb|CI669351.1|CI669351
EST:     TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCC
genomic: TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCC
EST: gi|29676281|gb|CB672556.1|CB672556
EST:     GAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCCTGTAC
genomic: GAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
EST: gi|29678964|gb|CB675239.1|CB675239
EST:     TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
genomic: TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
EST: gi|29624118|gb|CB629129.1|CB629129
EST:     TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
genomic: TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
EST: gi|29685786|gb|CB682061.1|CB682061
EST:     TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTG                         ACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC
genomic: TTGTAGACTCTTCAAAGAAAAGGAGTTACGATGACGAGGCTTTGCTAGTGgtaagtgctt ... gcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcatgcttatgaagcaactcttatgataaatgcatgtatttcctgcttttccagACAACTTTGAAAGCACTATCAGAAGCAGTGTCCAAGATAGATATCATGTACCATCATGCTCTTTTGAACAAT
                                     tatttcctgcttttcc  CT-rich tract
                     ttatgataaat  TA-rich tract