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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actaacttgaaaccagggttctcgaaataatgttatagttgttttagtttgattcataagtcataacatataacttgtcaacatctattgatatctgcagGTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAGCTTCCTTGCACCCACTTCTTTCATGTGCAATGTGTCGATAAATGGCTCA

Basic information

species Oryza sativa
transcript LOC_Os09g15430.4
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g15430.4 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G116952_T04 (Zea mays), 3'ss of exon 4
---actaacttgaaaccagggttctcgaaataatgttatagttgttttagtttgattcataagtcataacatataacttgtcaacatctattgatatc--tgcagGTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAGCTTCCTTGCACCCACTTCTTTCATGTGCAATGTGTCGATAAATGGCTCA
   ||  | ||   | |||||     | | ||  | |  | |    |   |||  | | |    |||| ||| | |  ||| |||||||| | ||||   ||||||||||||||||||||||||| ||||| ||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| ||||||||||| |
atgacatattttggaacaggggga--gtagtatagattcaatcacatagtttt--tccctcttccatagcatgttaaatgt-aacatctaataatattgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAGCTTCCTTGCACACACTTCTTTCATGTTCAATGTGTAGATAAATGGCTTA
















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|29670629|gb|CB666904.1|CB666904
EST:     TCCTGGGCCCAGGAACTAAAAAGGAAAGGATTGTTTCAGCTGAAGATGCT                         GTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAG
genomic: TCCTGGGCCCAGGAACTAAAAAGGAAAGGATTGTTTCAGCTGAAGATGCTgtgagtatat ... atatctgcagGTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAG
EST: gi|89182960|gb|CI045718.1|CI045718
EST:     TCCTGGGCCCAGGAACTAAAAAGGAAAGGATTGTTTCAGCTGAAGATGCT                         GTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAG
genomic: TCCTGGGCCCAGGAACTAAAAAGGAAAGGATTGTTTCAGCTGAAGATGCTgtgagtatat ... atatctgcagGTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAG
EST: gi|87029609|gb|CI257404.1|CI257404
EST:     TCCTGGGCCCAGGAACTAAAAAGGAAAGGATTGTTTCAGCTGAAGATGCT                         GTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAG
genomic: TCCTGGGCCCAGGAACTAAAAAGGAAAGGATTGTTTCAGCTGAAGATGCTgtgagtatat ... atatctgcagGTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttgattcataagtcataacatataacttgtcaacatctattgatatctgcagGTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAGCTTCCTTGCACCCACTTCTTTCATGTGCAATGTGTCGATAAATGGCTCA
                 ataacatataactt  TA-rich tract