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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTACCCTCAAGGAAGAATGTCACACCATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttctttctgttccaagcaacttgtgttaagtctataatgggtgtttattgactctgaaagagttttgtgttatctattatgctttagccagcatttatgtgcttacatttattgattaggtgacattcacaattgaattgggtgctcatttgtctttggtttatgagtttaacatggtttcttctctgttctag

Basic information

species Oryza sativa
transcript LOC_Os01g59930.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g59930.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G133213_T01 (Zea mays), 5'ss of exon 4
ATGTACCCTCAAGGAAGAATGTCACACCATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttctttctgttccaagcaacttgtgttaagtctataatgggtgtttattgactctgaaagagttttgtgttatctattatgctttagccagcatttatgtgcttacatttattgattaggtgacattcacaattgaattgggtgctcatttgtctttggtttatgagtttaacatggtttcttctctgttctag
||||| || ||||| |||||||| || |||||||| || |||||||||||||||||| ||||||||||||||||||||||  |   | |  |||||  |||  ||  |||      | || |   | |||  ||    | ||| ||  ||| ||||    ||   ||||    |||  | | |||                                                                                             
ATGTATCCCCAAGGGAGAATGTCCCATCATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgat---catcatgttctgagcttctgatgtagtcagtttagttttttttttgtggtcataaaaaagcattg-gttagtggtt--tctttg---agcgctgaggtgaa-------------------------------------------------------------------------------------------

upper sequence: LOC_Os01g59930.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA03G00920.1 (Glycine max), 5'ss of exon 4
ATGTACCCTCAAGGAAGAATGTCACACCATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttctttctgttccaagcaacttgtgt-taagtctataatgggtgtttattgactctgaaagagttttgtgttatctattatgctttagccagcatttatgtgcttacatttattgattaggtgacattcacaattgaattgggtgctcatttgtctttggtttatgagtttaacatggtttcttctctgttctag
|||||||| |||||||| |||||||||||||||||||| |||   |||||||| ||  | || ||||| |||||||||||   | | | |    || |  ||  ||||    ||  || | | || |    |||  ||     |   ||| ||  ||    | ||| ||||  |     || |   | ||||                                                                                       
ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgtttct----tctacaca-tttgtacacaaaactttcaaggtttcccattttctt----aatatttcgttgtaaagttgatgatttattc-----ttgtacacataca---------------------------------------------------------------------------------------

upper sequence: LOC_Os01g59930.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA19G29720.1 (Glycine max), 5'ss of exon 4
ATGTACCCTCAAGGAAGAATGTCACACCATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttctttctgttccaagcaact-tgtgttaagtctataatgggtgtttattgactctgaaagagttttgtgttatctatt--atgctttagccagcatttatgtgcttacatttattgattaggtgacattcacaattgaattgggtgctcatttgtctttggtttatgagtttaacatggtttcttctctgttctag
|||||||| |||||||| |||||||||||||||||||| |||   |||||||| ||  | |||||||| ||||| |||||   | | | |    || |  ||  | | |   |||| |   | |  | || |||  ||       | ||||  ||| |  | |  ||| ||||  |    || |  |                                                                                              
ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCTGTGAAAGGACCCAAGgtaaatgtttct----tctacacatttctatacaaagttttctaggttttttcattttctt------aatttttagttgtaaagtcgatgatttattct-tgttcacatat--------------------------------------------------------------------------------------------

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|58685456|gb|CK074143.1|CK074143
EST:     ATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAG                         GGTCGTTTCAGATACCAAGTTGGGCAAGTGAGAGCTTTTGGAATGCTAGCT
genomic: ATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttct ... tctgttctagGGTCGTTTCAGATACCAAGTTGGGCAAGTGAGAGCTTTTGGAATGCTAGCT
EST: gi|58684839|gb|CK073526.1|CK073526
EST:     ATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAG                         GGTCGTTTCAGATACCAAGTTGGGCAAGTGAGAGCTTTTGGAATGCTAGCT
genomic: ATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttct ... tctgttctagGGTCGTTTCAGATACCAAGTTGGGCAAGTGAGAGCTTTTGGAATGCTAGCT
EST: gi|117244284|gb|CT843075.1|CT843075
EST:     ATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAG                         GGTCGTTTCAGATACCAAGTTGGGCAAGTGAGAGCTTTTGGAATGCTAGCT
genomic: ATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttct ... tctgttctagGGTCGTTTCAGATACCAAGTTGGGCAAGTGAGAGCTTTTGGAATGCTAGCT