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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATTCTCTAAACATTCCGTTGTCAGTGGAGACTGTTTGTGTGTTCACTGCTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttattttttcctctcccggaagcactagttctcacactattggtactcatacaaataattgtgcttatttcttttaaccttccatag

Basic information

species Oryza sativa
transcript LOC_Os05g44360.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g44360.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G060611_T01 (Zea mays), 5'ss of exon 5
AAATTCTCTAAACATTCCGTTGTCAGTGGAGACTGTTTGTGTGTTCACTGCTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttattttttcctctcccggaagcactagtt----ctcacactattggtactcat-acaaataattgtgcttatttcttttaaccttccatag------
 || ||||| ||||| || ||||| |||||||| |||||||||||||| |||||||| ||||||||||| || || |||||||| |||||  |||||||||| |  || ||         |  ||| ||        |||||| || || |||   | ||| |   | |   |                  || |      
GAACTCTCTTAACATCCCATTGTCGGTGGAGACAGTTTGTGTGTTCACAGCTCCAATTTTCTCAGCAAATGCATCATGGGCTACCTACCTGCTAACAAAGgt-tggttgttcaaggaaatgtgagctctcacattaactcacattaatgttaccagtgacagagggtggaattgggggggggggggggctaattgatgtat

upper sequence: LOC_Os05g44360.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA01G01270.1 (Glycine max), 5'ss of exon 5
AAATTCTCTAAACATTCCGTTGTCAGTGGAGACTGTTTGTGTGTTCACTGCTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttattttttcctctcccggaagcactagttctcacactattggtactcatacaaataattgtgcttatttcttttaaccttccatag
 ||||| |||||||| ||  | ||||| || |||||||||||||| ||||| || |||||||||||    ||||| ||||| ||||| ||| | |||||||| || |   | ||      | |  |  ||  | |    || ||| |     | |     | | ||||     |  ||  ||||   |||
GAATTCCCTAAACATACCTCTCTCAGTTGAAACTGTTTGTGTGTTTACTGCACCTATATTCTCAGCCTTTGCTTCATGGGCAACTTATCTTCTGACAAAGgt-ttgtaaatgccagaattgcagcctgtatatttt-tgctgttg-tttatgtgcttgctaatttgctgcagccgctt--ccttttgtag

upper sequence: LOC_Os05g44360.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 5'ss of exon 5
AAATTCTCTAAACATTCCGTTGTCAGTGGAGACTGTTTGTGTGTTCACTGCTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttattttttcctctcccggaagcactagttctcacactattggtactcataca-aataattgtgcttatttcttttaaccttccatag
||||||  ||||||||||  ||||||| |||||||| ||||| |||||||| ||  |||| |||||    || |||||||| ||||||||||| |||||||| |   ||||| ||  |  |    | |||||      | | || | ||  ||| |  |||| |     | |   || ||||         
AAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtcttttttcttacatgatttctctagta-----aattttagaaccaataaatgataagtacatatttgcattctaacag-------

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|58612247|gb|CK039959.1|CK039959
EST:     CTCCAATATTCGCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAG                         GAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG
genomic: CTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttatttt ... ccttccatagGAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG
EST: gi|29630981|gb|CB635990.1|CB635990
EST:     CTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAG                         GAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG
genomic: CTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttatttt ... ccttccatagGAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG
EST: gi|25797492|gb|CA753453.1|CA753453
EST:     CTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAG                         GAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG
genomic: CTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttatttt ... ccttccatagGAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG
EST: gi|29643810|gb|CB648817.1|CB648817
EST:     CTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAG                         GAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG
genomic: CTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttatttt ... ccttccatagGAAGCCAAAGGCACTGGGGCTGGATTGATGGCAGCAGCTATTTTGGCAATG