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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCGTGAGGTTGGCTAGATTTGAGAATGATAGAACTATATCCTTCATACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctctactgcttgtgatttacagctattggatgctttagatacctgaaatgcactgccttgctccgctattctcatgcctgtctttttttatatatccttaag

Basic information

species Oryza sativa
transcript LOC_Os01g50770.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g50770.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G436835_T02 (Zea mays), 5'ss of exon 8
GTGCGTGAGGTTGGCTAGATTTGAGAATGATAGAACTATATCCTTCATACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctctactgcttgtgatttacagctattggatgctttagatacctgaaatgcactgcctt-gctccgctattctca--tgcctgtctttttttatatatccttaag
||| ||  | |||||||||||||||||||||||||||||||| |||||||||||||| |||||||| ||||||||||||||||| |||||||| |||||| |||       |  ||||   || || | | |||||||  |||   || ||| | ||  ||  || |  | || |||  ||||||||||| |||  || ||||||||
GTGTGTACGTTTGGCTAGATTTGAGAATGATAGAACTATATCGTTCATACCTCCTGATGGATCTTTTGATCTAATGACATACAGGCTTAGCACTCAGgttctct-------tcctgat---caactgtggaatgcttt--atagaagatatggaatgttttcacttcattgttttcacatgcctgtctttatttg-atgtccttaag

upper sequence: LOC_Os01g50770.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G162145_T01 (Zea mays), 5'ss of exon 7
GTGCGTGAGGTTGGCTAGATTTGAGAATGATAGAACTATATCCTTCATACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctctactgcttgtgatttacagctattggatgcttta---gatacctgaaatgcactgccttgctccgctattctcatgcctgtctttttttatatatccttaag
||| ||  | || |||||||| |||||||||||||||||||| |||||||||||||| |||||||| ||||||||||||||||| |||||||| |||||| |||       || ||||   || || | | ||||| ||    | |  |||||||      |||  ||   | ||| ||||| || |||| |||  || | ||| ||
GTGTGTACGTTTAGCTAGATTCGAGAATGATAGAACTATATCGTTCATACCTCCTGATGGATCTTTTGATCTAATGACATACAGGCTTAGCACTCAGgttctct-------ttctgat---caactgtggaatgctctatagaagatatgaaatgtttccactttatca--ttttcacatgcatgcctttatttg-atgttctttag

upper sequence: LOC_Os01g50770.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv00s0225g00220.t01 (Vitis vinifera), 5'ss of exon 7
GTGCGTGAGGTTGGCTAGATTTGAGAATGATAGAACTATATCCTTCATACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctctactgcttgtgatttacagctattggatgctttag-atacctgaaatgcactgcctt--gctccgctattctcatgcctgtctttttttatatatccttaag
 || ||  | |||||| |||||||||||||| |||| |||||||| || ||||| || |||||||| ||||| |||||||| || || || || ||||||     |      || | |||       |  |||  |  |   |   | | ||||  ||  ||  | |    |||| |    | |                       
ATGTGTTCGTTTGGCTCGATTTGAGAATGATCGAACAATATCCTTTATTCCTCCAGATGGATCTTTTGATCTCATGACATATAGGCTCAGTACTCAGgttcagcttg-----tgcggtttctcatgctatgattttccattgtgtatcatatgccatgtgttaaggtttattatttttgctcttag---------------------

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|163923569|gb|EG713310.1|EG713310
EST:     TACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAG                         GTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC
genomic: TACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctcta ... tatccttaagGTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC
EST: gi|58589259|gb|CF987567.1|CF987567
EST:     TACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAG                         GTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC
genomic: TACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctcta ... tatccttaagGTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC
EST: gi|163929166|gb|EG712667.1|EG712667
EST:     TGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAG                         GTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC
genomic: TGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctcta ... tatccttaagGTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC
EST: gi|27554506|gb|CA998406.1|CA998406
EST:     TACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAG                         GTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC
genomic: TACCTCCTGACGGATCTTTCGATCTAATGACATACAGACTTAGCACCCAGgttttctcta ... tatccttaagGTAAAACCACTTATCTGGGTGGAAGCACAAATTGAGAAACATTCAAGAAGC