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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtattctgtatatcacctctggtttttatccattactgggcattacacctatagattactcttggtctacttgtcatttctattattgtaacaaaagaatgttcactggtgcatgccagGTATGTTTTCTGTTGTTCCTACTCTCACAATGTTGCATCAAAAGGGAAGTTCATCGCGTTCGTGTCAGCACAAGCAGAGAGTGAAAATCCAGCGGCGGAA

Basic information

species Oryza sativa
transcript LOC_Os07g16970.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g16970.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G047431_T01 (Zea mays), 3'ss of exon 9
gcaagtattctgtatatcacctctggtttttatccattactgggcattacacctatagattactcttggtctacttgtcatttctattattgtaacaaaagaatgttcactggtgcatgccagGTATGTTTTCTGTTGTTCCTACTCTCACAATGTTGCATCAAAAGGGAAGTTCATCGCGTTCGTGTCAGCACAAGCAGAGAGTGAAAATCCAGCGGCGGAA
|||||||||   ||||||| |||     ||||||||||| | |        | | |   | ||  |     | |||||  |||||| | | |     ||  ||| ||||    ||||| |||||||||||||||| |||||||||||||| ||||| ||||||||||| || |||||||| ||||||||||||||||| |||| ||| ||||||| |  ||||
gcaagtatttcttatatcatctcccagatttatccattatttg--------cttgtgtttcaccttcacatttcttgt-gtttctaatgtgg----gaagcaatcttcatgtatgcataccagGTATGTTTTCTGCTGTTCCTACTCTCATAATGTCGCATCAAAAGGCAAATTCATCGCATTCGTGTCAGCACAAGCGGAGACTGATAATCCAGAGAAGGAA
















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|44676146|gb|CR289580.1|CR289580
EST:     AGCAACTTGGACGCAAATCAGACAT                         GTATGTTTTTCTGTTGTTCCTACTCTCACAATGTTGCATCAAAAGGGAAGT
genomic: AGCAACTTGGACGCAAATCAGACATgcaagtattc ... tgcatgccagGTATG-TTTTCTGTTGTTCCTACTCTCACAATGTTGCATCAAAAGGGAAGT
EST: gi|29616693|gb|CB621705.1|CB621705
EST:     TCTGTACAGATCATAATACCACAAAAGCAACTTGGACGCAAATCAGACAT                         GTATGTTTTCTGTTGTTCCTACTCTCACAATGTTGCATCAAAAGGGAAGTT
genomic: TCTGTACAGATCATAATACCACAAAAGCAACTTGGACGCAAATCAGACATgcaagtattc ... tgcatgccagGTATGTTTTCTGTTGTTCCTACTCTCACAATGTTGCATCAAAAGGGAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctacttgtcatttctattattgtaacaaaagaatgttcactggtgcatgccagGTATGTTTTCTGTTGTTCCTACTCTCACAATGTTGCATCAAAAGGGAAGTTCATCGCGTTCGTGTCAGCACAAGCAGAGAGTGAAAATCCAGCGGCGGAA
                     ttgtaac  putative branch site (score: 2)
           atttctattattgtaa  TA-rich tract