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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAGgtctggttacaccagcaattccacctcttaatgttttgtgacacaaacagattgaatattgttcatgcattccactgaaccgtcctttttcttctcttcag

Basic information

species Oryza sativa
transcript LOC_Os01g40620.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40620.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G086052_T03 (Zea mays), 5'ss of exon 6
TGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAGgtctggttacaccagcaattccacctcttaatgttttgtgacacaaacagattgaatattgttcatgcattccactgaaccgtcctttttcttctcttcag-----------------
  ||||| ||||| |||||||||||||||||||||||||| ||||| ||||| |||||||| || |  ||  |  || |   | | ||   ||| |    ||| ||| || |  |||    |    |     | |   ||   | || |||   |  |                   
CACCAACCATAATCATTGCACATGAATTCTATGATGCCTTACCAATCCATCAGTTTCAGgtttgttcccatgattaagtt--cttattgtggttatccatcaccaactgagtttatagccattgcactgaataatctccctctccttctctctccccctccctccctccctgtacag

upper sequence: LOC_Os01g40620.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv14s0066g02600.t01 (Vitis vinifera), 5'ss of exon 6
TGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAGgtctggtt-acaccagcaattccacctcttaatgttttgtgacacaaacagattgaatattgttcatgcattccactgaaccgtcctttttcttctcttcag
||||||| || |||||||| ||||| || ||||||||  | ||| ||||||||||||||||  | || | |     || |  ||   || |||  | |   |     |  | ||    ||  | |   ||     |  ||  |   ||   || || |   
TGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATCAATTTCAGgttcgtttgataaatttaaataaactctttgatgactgggttcttgtgctaactgttcttttattaattatgatttttgactttttcttaatttttcatt--
















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|25800535|gb|CA756496.1|CA756496
EST:     TAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAG                         AAAGCATCACGTGGCTGGTGCGAGAAGATGGTGGATCTTGCAGAAGACTCA
genomic: TAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAGgtctggttac ... ttctcttcagAAAGCATCACGTGGCTGGTGCGAGAAGATGGTGGATCTTGCAGAAGACTCA
EST: gi|29644655|gb|CB649662.1|CB649662
EST:     TAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAG                         AAAGCATCACGTGGCTGGTGCGAGAAGATGGTGGATCTTGCAGAAGACTCA
genomic: TAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAGgtctggttac ... ttctcttcagAAAGCATCACGTGGCTGGTGCGAGAAGATGGTGGATCTTGCAGAAGACTCA