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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtaaagaaagaccgaactcgcactggatggatcgtgtctgatagatcttgcaacgcacggcacaggcactgcatgtcactgctgattagctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGGACCTGATCCGCGTCGACGGCAGCGACACGGACGCGCTGTGCGGCTTCAT

Basic information

species Zea mays
transcript GRMZM5G815665_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G815665_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g13810.1 (Oryza sativa), 3'ss of exon 1
gcaagtaaagaaagaccgaactcgcactggatggatcgtgtctgatagatcttgcaacgcacggcacaggcactgcatgtcactgctgattagctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGGACCTGATCCGCGTCGACGGCAGCGACACGGACGCGCTGTGCGGCTTCAT
       ||||| |   ||| |||  ||   || ||| ||   || |  ||     |    |    |   | |      ||  ||  ||||| |    |||||  ||| ||||||| ||| |||||||||| || |||| |||||| | ||| ||||||||||||||||||||| |||| ||||| |||||||||||||||||
-----gcaagaacggatgaattcgagct---tgaatcttgggggagaactcagatgagtgccacttcgttctcgctgaatctttgtggattatcc--ctgcagGCGAGCGGCTGGATGAGGCGGTGCCGGAGCTGGAGCCGCTCCGGGTGCGAGACCTGATCCGCGTCGACGGCTGCGAGACGGAGGCGCTGTGCGGCTTCAT
















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|149104305|gb|EE289747.2|EE289747
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
EST: gi|149108121|gb|EE292470.2|EE292470
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
EST: gi|149070561|gb|EE158963.2|EE158963
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
EST: gi|148972176|gb|EE023049.2|EE023049
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCCTCGAGCGGCTCCGAGCGCGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATC-TCGAGCGGCTCCGAGCGCGG
EST: gi|149089725|gb|EE178993.2|EE178993
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
EST: gi|148949831|gb|EC895321.2|EC895321
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
EST: gi|148943321|gb|EC888379.2|EC888379
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
EST: gi|148947365|gb|EC892765.2|EC892765
EST:     CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAG                         AGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG
genomic: CATGCTCGCCTACCCACGGCTGCGCGACGCCGGTTTCGTTCCCGTCAAAGgcaagtaaag ... ctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttgcaacgcacggcacaggcactgcatgtcactgctgattagctagttgcagAGGAGAGGCTGGACGAGCCGGTGCCGGATCTCGAGCGGCTCCGAGCGCGGGACCTGATCCGCGTCGACGGCAGCGACACGGACGCGCTGTGCGGCTTCAT
                                   tgctgat  putative branch site (score: 3)