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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGGCAACGTTTCTTGCTTTCCATCCTCAAGATAACAACATTATAGCAATTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcacatctaatggcattgctctgcgttattcttataaaaaatggaacaagattcaatcaattttttttttgattctttgcacag

Basic information

species Oryza sativa
transcript LOC_Os03g14980.2
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g14980.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GRMZM2G550865_T02 (Zea mays), 5'ss of exon 8
GGCGGCAACGTTTCTTGCTTTCCATCCTCAAGATAACAACATTATAGCAATTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcacatctaatggcattgctctgcgttattcttataaaaaatggaacaagattcaatcaattttttttttgattctttgcacag
||| ||||| |||||||| || || || |||||||||||||| || ||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||  ||       |||| ||| | |      |  ||  |   ||  | |||   || | |  ||   || ||| |||||||| ||||
GGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtattcaca------gtggctttgtttt------tctttccattgaacaggacacagtt-agtatatggcttattt-attctttgtacag

upper sequence: LOC_Os03g14980.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GRMZM2G030422_T03 (Zea mays), 5'ss of exon 23
GGCGGCAACGTTTCTTGCTTTCCATCCTCAAGATAACAACATTATAGCAATTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcacatctaatggcattgctctgcgttattcttataaaaaatggaacaagattcaatcaattttttttttgattctttgcacag
||| ||||| |||||||| || ||||| |||||||||||||| || ||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||        |  |||| ||| | | | ||    ||  | | |  | |   |  |   |   ||||          |||||| ||||
GGCAGCAACTTTTCTTGCATTTCATCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtattca------tggtggctttgtttttcttt--cattgcacagatagaagttaagtatgacttattt--------gctctttgtacag

upper sequence: LOC_Os03g14980.1 (Oryza sativa), 5'ss of exon 22
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 5'ss of exon 21
GGCGGCAACGTTTCTTGCTTTCCATCCTCAAGATAACAACATTATAGCAATTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcacatctaatggcattgctctgcgttattcttataaaaaatggaacaagattcaatcaattttttttttgattctttgcacag------------------------------
 || || || |||||||| |||||||| ||||| |||||||| || || || |||||||| || ||||| || || || || ||||||||  | |||||||||||    ||      |   || || || | | | |       |  | ||     ||||      || | || | ||| |     |  |                              
AGCAGCTACTTTTCTTGCGTTCCATCCCCAAGACAACAACATCATTGCCATAGGAATGGAGGATTCAACAATACAGATTTATAATGTTCGTGTAGATGAGgtattttaccag--gccgttctttctttgtgatctcccgtacctatgttgatttgtattcgtcagtttgtattctagatcccgaataatgtgcctaattagagctttctgctgttggcag

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|27554431|gb|CA998331.1|CA998331
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58657128|gb|CK045808.1|CK045808
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58677432|gb|CK066119.1|CK066119
EST:     TTGGAATGGATGAGTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58655231|gb|CK043911.1|CK043911
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58691548|gb|CK080235.1|CK080235
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58594272|gb|CF992580.1|CF992580
EST:     TTGGAATGGATGACTCAACCATCCAAATGTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58657970|gb|CK046650.1|CK046650
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|163926688|gb|EG713704.1|EG713704
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58656462|gb|CK045142.1|CK045142
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|218501279|gb|FG957977.1|FG957977
EST:     GGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: GGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|218487225|gb|FG954419.1|FG954419
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|29680680|gb|CB676955.1|CB676955
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58689471|gb|CK078158.1|CK078158
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58694923|gb|CK083610.1|CK083610
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|29673860|gb|CB670135.1|CB670135
EST:     TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
EST: gi|58590233|gb|CF988541.1|CF988541
EST:     TTGGGATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAG                         GTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcac ... ctttgcacagGTCAAAAGCAAACTTCGAGGGCACTCTAAGAAAATTACTGGACTTGCTTTT