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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTCACAGGGGTTTCGCATTTGTTGAATTCGTCACAAAGCAAGAGGCGCAGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatcaaacatttcctcttcgaactaacctaccatatactgcagtgcaatgcgatgaaatttgtattttgaccttcctgcggttgcattcag

Basic information

species Oryza sativa
transcript LOC_Os04g52200.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52200.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G031529_T01 (Zea mays), 5'ss of exon 13
GAGTCACAGGGGTTTCGCATTTGTTGAATTCGTCACAAAGCAAGAGGCGCAGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatcaaacatttcctcttcgaactaacctaccatatactgcagtgcaatgcgatgaaatttgtattttgaccttcctgcggttgcattcag
 || ||||| ||||| || ||||| |||| ||||||||| |||||||| ||||||||||| ||||| || || |||||||||||||| || |||||  ||||||  |||||| ||| || || |||| ||    | | || ||||  ||| |   |  |  ||  || ||  | || |||||||     || | |||
TAGCCACAGAGGTTTTGCGTTTGTGGAATACGTCACAAAACAAGAGGCCCAGAACGCTCTACAAGCCCTCGCAAGCACTCATCTCTATGGTCGACACCTGgtaagtgatcaa-catgtcttcctcgagct----tgcaatctactttagtacgtcgtaacaaa--ttataaatcgaacttcctggctccgc-tccag

upper sequence: LOC_Os04g52200.1 (Oryza sativa), 5'ss of exon 14
lower sequence: Vv01s0011g01060.t01 (Vitis vinifera), 5'ss of exon 14
GAGTCACAGGGGTTTCGCATTTGTTGAATTCGTCACAAAGCAAGAGGCGCAGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatcaaacatttcctcttcgaactaacctaccatatactgcagtgcaatgcgatgaaatttgtattttgaccttcctgcggttgcattcag
 || || || || || |||||||||||||| ||||||||||||||||| ||||| ||||| ||||| ||| | ||||||||||| ||||| || ||| ||||||    || |    ||  |||  |  ||  | | ||||       | | |||     |  || ||  |||     |                   
AAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTCTTTCAAGCACTCATCTGTACGGTCGGCATCTGgtaagttctctacttgtttttctgtgg-cttgcatgccatgag----aatacaac----tataacttcaattactgtcag-----------------
















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|88831039|gb|CI080463.1|CI080463
EST:     AGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTG                         GTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
genomic: AGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatc ... ttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
EST: gi|88845260|gb|CI084185.1|CI084185
EST:     AGAACGCTCTCCAAGCACTTGCGAGCACTTATCTCTACGGGCGACATTTG                         GTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
genomic: AGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatc ... ttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
EST: gi|41882688|gb|BX928045.1|BX928045
EST:     GAACGCTCTCCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTG                         GTGATCGACCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
genomic: GAACGCTCT-CCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatc ... ttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG