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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataatcagtatcaacgttgttctttgcttattctacattcatattttcggagatcacatctttctgaaattcccaacaatttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTTTCCACTATAGGCCTTTGGGGGCGATCAATGGGTGCCGTTACATG

Basic information

species Zea mays
transcript GRMZM2G081642_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g10440.1 (Oryza sativa), 3'ss of exon 4
gtatataatcagtatcaacgttgttctttgcttattctacattcatattttcggagatcacatctttctgaaattcccaacaatttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTTTCCACTATAGGCCTTTGGGGGCGATCAATGGGTGCCGTTACATG
|||||||||||||||||   ||||||||        ||||||| ||||  | |   || ||||  ||||||||||             ||||||||||| ||||| ||||||| ||||||||  || |||  || ||| |||||||||  ||||||||||||||||||||| |||||||| |||||| |
gtatataatcagtatcacttttgttctt--------ctacatttatatcatggataattacattattctgaaatt-------------ttctagAAAGAGGACCTAAAATGTGTGGTGTCATACCTACGGACCACTAAGCAAGTTTCCTGTATAGGCCTTTGGGGGCGATCGATGGGTGCTGTTACAAG

upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G02050.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------------------------gtatataatcagtatcaacgttgttctttgcttatt---ctacattcatattttcggagatcac-----atctttctgaaattcccaacaatttacttc-tagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTTTCCACTATAGGCCTTTGGGGGCGATCAATGGGTGCCGTTACATG
                                                                            || | |       || |||| ||         |||     | ||| | | |||  | |  |  |     || ||||| || ||   ||   ||    |   ||||||| || |||||    | |||||||  | |  |   ||| |||||||| ||   |||||| |||||||| |||||||||||||| |||||| |
gtaagctacccctttttgcatgtatttatttctttaatcagtttccacaattgcatcttttatgcatctaactaaagtttctgtatgaaattaacgatgcagcacatctataaagttgcatgcttttttgtgtaattttcctgcaatgtttctcaagttt--aatgtttcctgtgacagAAAGATGATCTCAAGATGGTGGTGTCACATTTAAGAAGCAACAAACAAGTATCTCGTATAGGACTTTGGGGACGATCAATGGGTGCTGTTACAAG
















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|211317674|gb|FL189179.1|FL189179
EST:     CTTT-TCAGGTCTATCCGGCGGGGATTATGTCAGGTTGGGTTGGCATGAG                         AAAGAAGAC-TCAAATGTGCGGTGTCATGTCTTCGG
genomic: CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAGgtatataatc ... ttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGG
EST: gi|21481543|gb|BQ578226.1|BQ578226
EST:     CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAG                         AAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
genomic: CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAGgtatataatc ... ttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
EST: gi|148941968|gb|EC886955.2|EC886955
EST:     CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAG                         AAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
genomic: CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAGgtatataatc ... ttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
EST: gi|149069709|gb|EE158095.2|EE158095
EST:     CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAG                         AAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
genomic: CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAGgtatataatc ... ttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
EST: gi|101394355|gb|EB819112.1|EB819112
EST:     CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAG                         AAAGAAGACCTCACATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
genomic: CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAGgtatataatc ... ttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
EST: gi|149041290|gb|EE046926.2|EE046926
EST:     CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAG                         AAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
genomic: CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAGgtatataatc ... ttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
EST: gi|213187018|gb|FM194143.1|FM194143
EST:     CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAG                         AAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT
genomic: CTGGGTCAGGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAGgtatataatc ... ttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcatattttcggagatcacatctttctgaaattcccaacaatttacttctagAAAGAAGACCTCAAATGTGCGGTGTCATGTCTTCGGGACAATAAACAAGTTTCCACTATAGGCCTTTGGGGGCGATCAATGGGTGCCGTTACATG
                                            tttacttct  CT-rich tract
                                       aacaattta  TA-rich tract