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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACTGTCCGTGTAAAAAATACAACCCTTCCCAAGGGTACATATGTCAAGTTGCAGCCTCACACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCATgtgaggatatgataaaaacgctccattattaaaaccattccgtttcttggggaaatcatcattctaatgataatgctttgctttgtgacattgcag

Basic information

species Oryza sativa
transcript LOC_Os04g48770.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g48770.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G114220_T01 (Zea mays), 5'ss of exon 7
ACACTGTCCGTGTAAAAAATACAACCCTTCCCAAGGGTACATATGTCAAGTTGCAGCCTCACACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCATgtgaggatatgataaaaacgctccattatt--------aaaaccattccgtttcttggggaaatcatcattctaatgataatgctttgctttgtgacattgcag
||||||||| |||||||||| | || ||||||||||| |||||||| || ||||| |||||||||||||| ||| |||| || ||||| ||||| ||||||| |||| |   | ||||   |||  || |        |||  |  | | |||||   || | |   | || | ||  | ||   ||||| |   |  || |||
ACACTGTCCATGTAAAAAATGCGACTCTTCCCAAGGGCACATATGTGAAATTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaacctttaaaattgtcctataatgatcttgaaaattctcttcatttctcttggcattaggcgttatcattctcattacttgctgttaaattttccag

upper sequence: LOC_Os04g48770.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G05030.1 (Glycine max), 5'ss of exon 7
ACACTGTCCGTGTAAAAAATACAACCCTTCCCAAGGGTACATATGTCAAGTTGCAGCCTCACACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCATgtgag-------------gatatgataaaaacgctccattattaaa-------accattccgtttcttggggaaatcatcattctaatgataatgc---tttgctttgtgacattgcag----------
||| |||    || ||||||   || ||||| ||||| |||||||| ||||| |||||||||||||  ||||| ||||| || || ||||| || || |||||||               | |  |   |    || || |||| |       |||| |  ||||||   |   ||   |||||  |   | |      || | | | |||   |||            
ACATTGTTAAAGTGAAAAATGTGACACTTCCAAAGGGGACATATGTTAAGTTACAGCCTCACACAAAAGACTTCTTGGATATTTCCAATCCAAAAGCTATgtgagttgacatttattaagtttagtttgataaatctatgattatatttccctaccaatgagtttctcttgagtatttacattcacacactgacttgagttagttatttgattgtgcttttttatgcag

upper sequence: LOC_Os04g48770.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA05G34630.2 (Glycine max), 5'ss of exon 7
ACACTGTCCGTGTAAAAAATACAACCCTTCCCAAGGGTACATATGTCAAGTTGCAGCCTCACACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCATgtgaggatatgataaaaacgctccatt-attaaaaccattccgtttcttggggaaatcatcattctaatgataatgctttgct-ttgtgacattgcag--
||| ||||   || ||||||   || ||||| ||||| |||||||| ||||| ||||| |||||||  ||||||||||| || || ||||| || || |||||||   |   | |  | | |   ||   |||| | ||    |||       ||    |   |||  | | | |||  | || |      | |      
ACATTGTCAAAGTGAAAAATGTGACACTTCCAAAGGGGACATATGTTAAGTTACAGCCCCACACAAAAGACTTTTTGGATATTTCCAATCCAAAAGCTATgtgagttgacatttattaagtttagtttgataaagctatgatatttacctaccaatgagtttctcttgtaaaagtgcaattctgtcactcaaatatgttt

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|88397598|gb|CI684525.1|CI684525
EST:     TTGCAGCCTCACACAACTGACTTTTGGGACATCTCAAATCCGAAGGCCAT                         CCTGGAGAAAACACTAAGAAACTTCTCTTGTTTAACCACCGGCGATAGTAT
genomic: TTGCAGCCTCACACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCATgtgaggatat ... gacattgcagCCTGGAGAAAACACTAAGAAAGTTGTCTTGTATAACCACCGGCGATAGTAT
EST: gi|427856|gb|D23997.1|D23997
EST:     CACAACTGACTTTTTGGACATCTCAAATCCGAA-GCCAT                         CCTGGAGAAAACACTAAGAAACTTCTCTTGTTTAACCACCGGCGATAGTAT
genomic: CACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCATgtgaggatat ... gacattgcagCCTGGAGAAAACACTAAGAAAGTTGTCTTGTATAACCACCGGCGATAGTAT
EST: gi|58687667|gb|CK076354.1|CK076354
EST:     TTGCAGCCTCACACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCAT                         CCTGGAGAAAACACTAAGAAACTTCTCTTGTTTAACCACCGGCGATAGTAT
genomic: TTGCAGCCTCACACAACTGACTTTTTGGACATCTCAAATCCGAAGGCCATgtgaggatat ... gacattgcagCCTGGAGAAAACACTAAGAAAGTTGTCTTGTATAACCACCGGCGATAGTAT