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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctgacataaattgttggatgaaaaccaatataacaagttattaagttctgctccccacagtagcacaaggtcttttatgcacttagttattctttcttttgcaattttacttgtattccatgtacttttgatttgagttcggtgttattatcacgacatttaaattcttgtttcagGCCAAGGACTGGAAAAAGGCATTGCAGCTATTTGAGGAGATCAAGTCAATCAAATTAATGCCAACCGTTTCAATGATGAATGCTCTGATCACCGCATTGT

Basic information

species Oryza sativa
transcript LOC_Os10g10170.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g10170.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G018929_T02 (Zea mays), 3'ss of exon 3
gtaagttctgacataaattgttggatgaaaaccaatataacaagttattaagttctgctccccacagtagcacaaggtcttttatgcacttagttattctttcttttgcaattttacttgtattccatgtacttttgatttgagttcggtgttattatcacgacatttaaattcttgtttcagGCCAAGGACTGGAAAAAGGCATTGCAGCTATTTGAGGAGATCAAGTCAATCAAATTAATGCCAACCGTTTCAATGATGAATGCTCTGATCACCGCATTGT
                                                                              |||  |||         |||    || || | | |  |||  | ||  |   | | ||  ||| ||  |         |||| ||  |    | |  ||||||||||  | |||||||| |||||| |||||||||  |||||||||||||| |||||||| |  ||| | |||||||||||||||||| |||||||| |  |||
-------------------------------------------------------------------------tgttacttgcatgttacatcccatttcccctcttcctaatacactgatgttttac-caatattccttttagcac---------atcatgatttgaggactgctgtttcagGCGGACGACTGGAAGAAGGCACTGCAGCTATACGAGGAGATCAAGTCTATCAAATTGACCCCATCGGTTTCAATGATGAATGCTTTGATCACCTCTCTGT
















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|58691402|gb|CK080089.1|CK080089
EST:     ATCAAGTTGGAACCATTGCATACAGTTCATTAATGGGTGCTTGCTGCAAT                         GCCAAGGACTGGAAAAAGGCATTGCAGCTATTTGAGGAGATCAAGTCAATC
genomic: ATCAAGTTGGAACCATTGCATACAGTTCATTAATGGGTGCTTGCTGCAATgtaagttctg ... cttgtttcagGCCAAGGACTGGAAAAAGGCATTGCAGCTATTTGAGGAGATCAAGTCAATC
EST: gi|58695106|gb|CK083793.1|CK083793
EST:     ATCAAGTTGGAACCATTGCATACAGTTCATTAATGGGTGCTTGCTGCAAT                         GCCAAGGACTGGAAAAAGGCATTGCAGCTATTTGAGGAGATCAAGTCAATC
genomic: ATCAAGTTGGAACCATTGCATACAGTTCATTAATGGGTGCTTGCTGCAATgtaagttctg ... cttgtttcagGCCAAGGACTGGAAAAAGGCATTGCAGCTATTTGAGGAGATCAAGTCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacttttgatttgagttcggtgttattatcacgacatttaaattcttgtttcagGCCAAGGACTGGAAAAAGGCATTGCAGCTATTTGAGGAGATCAAGTCAATCAAATTAATGCCAACCGTTTCAATGATGAATGCTCTGATCACCGCATTGT
    ttttgat  putative branch site (score: 4)
                                           ttcttgtttc  putative PPT
                                    atttaaattcttgttt  TA-rich tract