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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGTTAGCTACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgcaacatctttgggttttcatatatttcaccaatcaccaggaagctaagtagctaacttaacatcattaactctactagcaccactttttttgtatgtagcaaattgttgatacacgataaccttctcttgttaagatgtcctaaatgttcttcatgtctgtaatagtgatatcattttgaccattttcag

Basic information

species Oryza sativa
transcript LOC_Os01g14860.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g14860.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G024151_T01 (Zea mays), 5'ss of exon 4
ACAGTTAGCTACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgcaacatctttgggttttcatatatttcaccaatcaccaggaagctaagtagctaact-taacatcattaactctactagcaccactttttttgtatgtagcaaattgt-tgatacacgataaccttctcttgttaagatgtcctaaatgttcttcatgtctgtaatagtgatatcattttgaccattttcag
||||| ||||||||||||||||| |||||||| |||||||| |||||||| ||||||||||||| |||||| | |||  |  |       | ||    |   || |      || |||||   || |    |   |  |          |   | |||| |    |   |  |||  || || |  || ||||| ||||  | ||||| | |      | |||||                                   
ACAGTGAGCTACATGGCTGAGCGCATTGTAGGTCAAGGTTCTTTTGGGATCGTCTTCCAGgttatttgcaataacttgtgactg------actttgatatgtacta-----ttatgtagccgcctgtggtgttgctttccacggcgctgcacatgttttagatcttcatatcttgcgtgctata-aatcacctt-tcttaatcagatgccatttcacctgttcatag---------------------------------

upper sequence: LOC_Os01g14860.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G835235_T04 (Zea mays), 5'ss of exon 4
ACAGTTAGCTACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgcaacatctttgggttttcatatatttcaccaatcaccaggaagctaagtagctaact-taacatcattaactct-actagcaccactttttttgtatgtagcaaattgttgatacacgataaccttctcttgttaagatgtcctaaatgttcttcatgtctgtaatagtgatatcattttgaccattttcag
||||| ||||||||||||||||| |||||||| |||||||| ||||||||||||||||||||||||||||||| ||   |  ||  |||| ||| |                || | ||||| || |   ||   || | |  |||||||    |  | || || ||     || | |  |   |   ||  | || ||  |||        | |||     ||| ||   | | |  ||  |||||   |  ||   ||
ACAGTGAGCTACATGGCTGAGCGCATTGTAGGTCAAGGTTCTTTTGGGATTGTCTTCCAGgttagttgcaacaactcctgacttagatatgttttat---------------tatgcagctatctgtggtattgctatcccggactagcagttttcatgttttaggtctttcatagcttgtgtgc--caaggtcctttttgtaa------tcagatg-----catctcctaatttgcaatgccatttgacctgttcatag
















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|58602831|gb|CK013359.1|CK013359
EST:     ACATGGCTGAGCGTAT-GTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58685932|gb|CK074619.1|CK074619
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58661642|gb|CK050322.1|CK050322
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|2317492|gb|C22546.1|C22546
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58598975|gb|CK009503.1|CK009503
EST:     CATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCANG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCA
genomic: CATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCA-Ggttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCA
EST: gi|58674441|gb|CK063127.1|CK063127
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58665294|gb|CK053980.1|CK053980
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58676495|gb|CK065182.1|CK065182
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58665103|gb|CK053789.1|CK053789
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|29687086|gb|CB683361.1|CB683361
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58673516|gb|CK062202.1|CK062202
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|29677190|gb|CB673465.1|CB673465
EST:     ACATGCCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58652484|gb|CK041164.1|CK041164
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58671331|gb|CK060017.1|CK060017
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58657986|gb|CK046666.1|CK046666
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58654229|gb|CK042909.1|CK042909
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58590979|gb|CF989287.1|CF989287
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|58653056|gb|CK041736.1|CK041736
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|29618976|gb|CB623988.1|CB623988
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|163921584|gb|EG712155.1|EG712155
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|5003279|gb|AU068428.1|AU068428
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|86596734|gb|CI286647.1|CI286647
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAGACAGGTGAGACAGTTGCTATCAAGAAGGTTCTTCAG
EST: gi|33796677|gb|CF324206.1|CF324206
EST:     ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAG                         GCAAAATGTCTGGAG
genomic: ACATGGCTGAGCGTATTGTAGGGCAAGGTTCATTTGGGATTGTCTTCCAGgttagttgca ... ccattttcagGCAAAATGTCTGGAG