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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTGACACAACTTATTGGACAACATGTGGATGTGCATGTGAAAAATGGCTCTATTATCTCCGGAATCCTACATGCAACAAACTCTGACAAAGACTTAGgtaacaaatctcgcttccatatgttatctggcattacttttgaatccttttattttcttttggcatatcctggtactatactgattagagggagcaagtgtgatattttttttggtcataactcttgagagtgtttttgtag

Basic information

species Oryza sativa
transcript LOC_Os02g27950.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g27950.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G056773_T01 (Zea mays), 5'ss of exon 3
GTTTTGACACAACTTATTGGACAACATGTGGATGTGCATGTGAAAAATGGCTCTATTATCTCCGGAATCCTACATGCAACAAACTCTGACAAAGACTTAGgtaacaaatctcgcttccatatgttatctggca-ttacttttgaatccttttattttcttttggcatatcctggtactatactgattagagggagcaagtgtgatattttttttggtcataactcttgagagtgtttttgtag
||| | |||||||||||||| || |||||  | ||||||||||||||||||||||| || || |||||  | |||||||||||||||||||||||||| ||||        | | || || | || | |  || || ||   | | | ||| |   || |||    | | ||  |     |||| ||   |      | ||| |||||  |||   |  | |   |  ||| |  |  |  ||
GTTCTAACACAACTTATTGGGCATCATGTCAACGTGCATGTGAAAAATGGCTCTATAATATCTGGAATTTTCCATGCAACAAACTCTGACAAAGACTTCGgta--------cacctctatctcttttttctcagttcctgacgtagcttttaagaatcctttaaagttttctattcgagcactgtttcctgaattgtattgtcatattcctttcaattcttaacttcaagatt-ctcctacag

upper sequence: LOC_Os02g27950.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G829738_T01 (Zea mays), 5'ss of exon 3
GTTTTGACACAACTTATTGGACAACATGTGGATGTGCATGTGAAAAATGGCTCTATTATCTCCGGAATCCTACATGCAACAAACTCTGACAAAGACTTAGgtaacaaatctcgcttccatatgttatctggcattacttttgaatccttttattttcttttggcatatcctggtactatactgattagagggagcaagtgtgatattttttttggtcataactcttgagagtgtttttgtag
||| | |||||||||||||| || |||||||| ||||||||||| || |||||||| ||||| |||||  | |||||||||||| ||||||||||||| ||||        | | || || | || |      || ||     | | |||     || |||    | | ||  |     || | ||    | |     | ||  || ||  ||    |     ||| |   |  |  |  ||
GTTCTAACACAACTTATTGGGCATCATGTGGACGTGCATGTGAATAACGGCTCTATAATCTCTGGAATTTTCCATGCAACAAACCCTGACAAAGACTTTGgta--------ctcctctatttttttttctcagttcctgacatagcttttatgaatcctttacagttttctatttgagcaccgtttttgtgaattgtat-tggcatattcattcaatacttaacttcaagattctcctacag

upper sequence: LOC_Os02g27950.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA16G00780.1 (Glycine max), 5'ss of exon 2
GTTTTGACACAACTTATTGGACAACATGTGGATGTGCATGTGAAAAATGGCTCTATTATCTCCGGAATCCTACATGCAACAAACTCTGACAAAGACTTAGgtaa--caaatctcgcttccatatgttatctggcattact----------------tttgaatcct----tttattttcttttggcata----tcctggtactatactgattagagggagcaagtgtgatattttttttggtcataactcttgagagtgtttttgtag
 |    |||   |||||||| || |||||||| || || ||||||||||| |||||   ||| |||||  | ||||||||||| ||||||||||| || ||||       |   ||||   ||  | || ||    || |                |||| ||  |     ||| ||  ||   || |     |     || |||| | ||       |   | | ||| |||||||   |         |    | |||| |  |||
TTAACAACATGCCTTATTGGGCAGCATGTGGAAGTCCAGGTGAAAAATGGATCTATATACTCTGGAATATTTCATGCAACAAATTCTGACAAAGATTTTGgtatgttctgttatgcttgtgtaattgatttgatgatattgagggcaataatattttttgtattgtagtgcttaattgattccagcttccagttttcattattatatttatggatcttacagaatttgacattttttactgcttatgtcatcattactgttctcttag

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|58695730|gb|CK084417.1|CK084417
EST:     CTCTATTATCTCCGGAATCCTACATGCAACAAACTCTGACAAAGACTTAG                         GAGTTATCATGAAAATGGCACAGGTGATAAAGGATGGTTCTGCCAGGGGAC
genomic: CTCTATTATCTCCGGAATCCTACATGCAACAAACTCTGACAAAGACTTAGgtaacaaatc ... gtttttgtagGAGTTATCATGAAAATGGCACAGGTGATAAAGGATGGTTCTGCCAGGGGAC