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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgtagcgtatagttttttaatgttctcatttccattttttaccaataaatgcacagctcttataaagcatactcattgcag

Basic information

species Oryza sativa
transcript LOC_Os01g73530.2
intron # 24
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g73530.1 (Oryza sativa), 5'ss of exon 24
lower sequence: GRMZM2G074241_T01 (Zea mays), 5'ss of exon 7
GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgt----agcgtatagtttt-ttaatgttctcatttccattttttaccaataa--atgcacagctcttataaagc-atactcat---tgcag
|||||| ||||||| |||||||| || | ||| ||||| ||||||||||||||||||||    || ||| ||| || ||  | || || ||||  || ||   ||   |   ||  | |  ||||  |||| |||||| |   |||||
GCTCGTCTGTTCTTTCACTGTCCCAAGTATGGCATCCTCGACGAGTGCACCAAgtatgtctcaagtgtaaagtgttgttcgtattttcgtttcatttcttgggcacacactgtgtgcggtacttagcaagctatactcctctttgcag

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 5'ss of exon 24
lower sequence: GLYMA08G14480.1 (Glycine max), 5'ss of exon 21
GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgtagcgtatagttttttaatgttctc---------atttccattttttaccaataaatgcacagctcttat------aaagcatactcattgcag
|| || |||||||| |||   || ||||| |||||||| |||||||||||||||||||||   | |   |||    | | ||          |||    ||| |||   ||   |   |   | | ||      |||  ||| |    ||||
GCACGCTTGTTCTTTCACGAGCCCAAATTCGGTATCCTTGACGAGTGCACCAAgtatgtatgatttgcctttgccttttccttttcagagaaattattgtttcttattcattgttaatcttgtttcatttcctaaaaaaatattgtcggcag

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 5'ss of exon 24
lower sequence: GLYMA18G02110.1 (Glycine max), 5'ss of exon 26
GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgta-gcgtata-gttttttaatgttctcatttccattttttaccaataaatgcacagctctt------ataaagcatactcattgcag------------------------
|| || |||||||||||    || |||||||||||||| |||||||| |||||||||||| |  | || | ||  | |||   |  ||||  |   ||   | |   |||     | ||       | || | |  |  |  | |                        
GCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACCAAgtatgtatgaatctatgattacttatgcctttttttctctcacttggaattgtttgcttctttttttttttggttaaccttgtttttaactgtcttgaaaaaaatattgatggcag

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 5'ss of exon 24
lower sequence: GLYMA05G31270.1 (Glycine max), 5'ss of exon 23
GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgtagcgtatagttttttaatgttctcatttccattttttaccaataaatgcacagctcttataaagcatactcattgcag
|| || |||||||| ||    || ||||||||||| || |||||||||||||||||||||  |  |    ||||  | |||   ||   |    ||   | |   |   ||  || || |||  ||| |  | ||||
GCACGCTTGTTCTTTCATAAGCCCAAATTTGGTATTCTTGACGAGTGCACCAAgtatgta-tgattttccttttccttttccttttcaaagaaattgttacttgtttttcatatcctaaaaaaaataatgttggcag

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 5'ss of exon 24
lower sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 25
GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgt---agcgtatagttttttaatgttctcatttccattttttaccaataaatgcacagctcttataaagcatactcattgcag--------------------------------
|| || |||||||||||    || |||||||||||||| |||||||| |||||||||||   |   |||  ||   || | | |   |||   | |       |    |   |   | || |      |  | |                                      
GCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACCAAgtatgtttgaatctatgattacgtattatgcctttttttctctcacgtggaattgtttgcttttttttttttttttgttaaccttgtttttactgtcttgaaaaaattattgatggcag

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|33684551|gb|CF312790.1|CF312790
EST:     CGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAA                         TGCCACAAGTGTCGATGTTGAGGAGCATTTGTACAAGATAGCAACTAGTAT
genomic: CGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgtagcg ... ctcattgcagTGCCACAAGTGTCGATGTTGAGGAGCATTTGTACAAGATAGCAACTAGTAT
EST: gi|29645989|gb|CB650996.1|CB650996
EST:     CGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAA                         TGCCACAAGTGTCGATGTTGAGGAGCATTTGTACAAGATAGCAACTAGTAT
genomic: CGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAAgtatgtagcg ... ctcattgcagTGCCACAAGTGTCGATGTTGAGGAGCATTTGTACAAGATAGCAACTAGTAT