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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttgatgttagatatttgctacaaagtactgaatataatactgtcatgattactaataaacctccttatttgagcagGACCTGTTAATCACTCATCAATAACAGCTTTCCAGAGTGCAACCTTGAAGATCAACTTCAATTTCAAAAAGCAGCCTGAGAAACCACACGAGACTACCGT

Basic information

species Oryza sativa
transcript LOC_Os02g56110.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g56110.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G054210_T01 (Zea mays), 3'ss of exon 17
gttagtttgatgttagatatttgcta-caaagtactgaatataatactgtcatgattactaataaacctccttatttgagcagGACCTGTTAAT------CACTCATCAATAACAGCTTTCCAGAGTGCAACCTTGAAGATCAACTTCAATTTCAAAAAGCAGCCTGAGAAACCACACGAGACTACCGT
|| |||||| |  |  |||||  | | ||||||| |   ||||||   |||||| | |||   |||||| || || |||||||||| ||  |||      ||| |||||||||||||||| ||||||||||||||||||||||  ||  ||||||||| | ||| ||  || ||||  |||||      
gtaagtttggtagttcatattgacaaacaaagtagt---tataatgtcgtcatggtcact---aaacctactaatgtgagcagGACATGAGAATACAACCCACCCATCAATAACAGCTTTTCAGAGTGCAACCTTGAAGATCACGTTTGATTTCAAAATGAAGCTTGGAAACCCACGAGAGAC------
















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|86513303|gb|CI155936.1|CI155936
EST:     TTTGTCATCAAGTACATCTGTTTCTG                         GGACCAAATCCGCTCCTGCAGTACCTCAAGATATGGATTTGCTTGATGGTC
genomic: TTTGTCATCAAGTACATCTGTTTCTGgttagtttcg ... tccattgcagGGACCAAATCCGCTCCTGCAGTACCTCAAGATATGGATTTGCTTGATGGTC
EST: gi|87035932|gb|CI190554.1|CI190554
EST:     GGTCTGCCATCAAATACATCTGTTTCTG                         GACCTGTTAATCACTCATCAATAACAGCTTTCCAGAGTGCAACCTTGAAGA
genomic: GGTCTGCCATCAAATACATCTGTTTCTGgttagtttga ... atttgagcagGACCTGTTAATCACTCATCAATAACAGCTTTCCAGAGTGCAACCTTGAAGA
EST: gi|27578089|gb|CB000784.1|CB000784
EST:     TGAAGCTACGGATGTTCTCAGTAGTTTGTCATCAAGTACATCTGTTTCTG                         GGACCAAATCCGCTCCTGCAGTACCTCAAGATATGGATTTGCTTGATGGTC
genomic: TGAAGCTACGGATGTTCTCAGTAGTTTGTCATCAAGTACATCTGTTTCTGgttagtttcg ... tccattgcagGGACCAAATCCGCTCCTGCAGTACCTCAAGATATGGATTTGCTTGATGGTC
EST: gi|87035931|gb|CI190553.1|CI190553
EST:     ATACATCTGTTTCTG                         GACCTGTTAATCACTCATCAATAACAGCTTTCCAGAGTGCAACCTTGAAGA
genomic: ATACATCTGTTTCTGgttagtttga ... atttgagcagGACCTGTTAATCACTCATCAATAACAGCTTTCCAGAGTGCAACCTTGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagtactgaatataatactgtcatgattactaataaacctccttatttgagcagGACCTGTTAATCACTCATCAATAACAGCTTTCCAGAGTGCAACCTTGAAGATCAACTTCAATTTCAAAAAGCAGCCTGAGAAACCACACGAGACTACCGT
                            tactaat  putative branch site (score: 1)
                                      cctccttattt  putative PPT
                       atgattactaataaa  TA-rich tract