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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttccatttatcactacagaattactgatagttttgtacattgtttctttgttcctattgaggatttggggcaagaatctcacatgtttgtgttgacacaaacag

Basic information

species Oryza sativa
transcript LOC_Os03g38590.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g38590.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G124918_T01 (Zea mays), 5'ss of exon 9
GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttccatttatcactacagaattactgatagttttgtacattgtttctttgttcctattgaggatttggggcaagaatctcacatgtttgtgttgacacaaacag
||| ||||| ||||| |||||||||||||||||||| |||||||||||||| |||   || || ||| | ||||    |||     |   |||    |  |  |||| |  | || |   ||  ||  | ||||                     
GAACGAGAGCGCTCTTAAATTTGGATGGTTTTTCCTATTCTACTTGgtgagctcccggtaacattactgtattaggattagg---atgtgttgccgataagc-cctactacgcatctcacgcc-gacccccacacag------------------

upper sequence: LOC_Os03g38590.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G011078_T01 (Zea mays), 5'ss of exon 9
GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttccatttatcactacagaattactgatagttttgtacattgtttctttgttcctat-tgaggatttggggcaagaatctcacatgtttgtgttgacacaaacag
||| ||||| ||||| || || |||||||||||||| |||||||||||||| |||   |  || | | | ||||  ||  || ||| | ||              |   ||   ||   |       | | ||||                     
GAACGAGAGCGCTCTCAAGTTCGGATGGTTTTTCCTCTTCTACTTGgtgagctcccagtgacattgctgtatta--gaatgtgttgcagataacccggacacaggttcatgctcatgctgattgctgaccccacacag------------------

upper sequence: LOC_Os03g38590.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA13G25460.1 (Glycine max), 5'ss of exon 8
GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttccatttatcactacagaattactgatagttttgtacattgtttctttgttcctattgaggatttggggcaagaatctcacatgtttgtgttgacacaaacag
|||||| |||||| |||||||||||||||||||| |||| ||  |||| | |    | ||           ||  | ||   |   ||   | |  |||     || |     || |     ||  ||||    |  || || | |||       
GAATGAAAGTGCTTTGAAATTTGGATGGTTTTTCATGTTTTATCTGgtaaatggattgtac----------tttttaatg--tgcataagctatg-cttaaaaactgtaagaaatct-----aatcatcttcatttcttctgcttacag------

upper sequence: LOC_Os03g38590.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA07G31090.1 (Glycine max), 5'ss of exon 9
GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttccatttatcactacagaattactgatagttttgtacattgtttctttgttcctattgaggatttggggcaagaatctcacatgtttgtgttgacacaaacag
|||||| |||||| ||||||||||||||||||||||||| ||  |||| | |   |  |   |||  | |||       || | ||         |        || |     || |     ||  ||||    |  || || | |||       
GAATGAAAGTGCTTTGAAATTTGGATGGTTTTTCCTGTTTTATCTGgtaaat---agattgtactttataatgtgcataagctctgc--------ttcaaaaaactgtaagaaatct-----aatcatcttgatttcttctgcttacag------

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|25799630|gb|CA755591.1|CA755591
EST:     GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTG                         GTCCACATCGCTTTCTGTGTGTATGCGGCTGTTTCTCCATCAATTCTATTT
genomic: GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttcca ... acacaaacagGTCCACATCGCTTTCTGTGTGTATGCGGCTGTTTCTCCATCAATTCTATTT
EST: gi|29662682|gb|CB658957.1|CB658957
EST:     GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTG                         GTCCACATCGCTTTCTGTGTGTATGCGGCTGTTTCTCCATCAATTCTATTT
genomic: GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttcca ... acacaaacagGTCCACATCGCTTTCTGTGTGTATGCGGCTGTTTCTCCATCAATTCTATTT
EST: gi|29662718|gb|CB658993.1|CB658993
EST:     GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTG                         GTCCACATCGCTTTCTGTGTGTATGCGGCTGTTTCTCCATCAATTCTATTT
genomic: GAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTGgtgagttcca ... acacaaacagGTCCACATCGCTTTCTGTGTGTATGCGGCTGTTTCTCCATCAATTCTATTT