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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggcagcactgtcctaaaactgcaaattgcattttgttctaccttacttagcatgttctgcgactcttagattcaaatttagtaatccccgatttgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGCACCAACCTAGCCATCAGAGACATGTCAAGCAGTGATCCTTATGTAGTCC

Basic information

species Oryza sativa
transcript LOC_Os02g10480.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10480.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G138349_T02 (Zea mays), 3'ss of exon 5
gtaggcagcactgtcctaaaactgcaaattgcattttgttctaccttacttagcatgttctgcgactcttagattcaaatttagtaatccccgatttgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGCACCAACCTAGCCATCAGAGACATGTCAAGCAGTGATCCTTATGTAGTCC
    | |   ||| ||  ||| || | |||  | | | |  ||   |   ||   ||||   ||    || | |  |    |  |  |      |    ||||||||| |||||||| |||||||| ||||||||||||||||||||||  ||||||||||||||||||||||| || |||||||||||||| |||||||| ||||
----gtatggctgccc--aaattgaacatt-tactatatg-tatggtcactaatttgttgcccggtatttgggtgtag---tgattcttttttttcgtttttgcagGTCGGCATGATCGAGTTCATTGGAATATTGAATGTCAAGGTGATTGGAGGCACCAACCTAGCCATCAGGGATATGTCAAGCAGTGACCCTTATGTCGTCC
















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|87005483|gb|CI285705.1|CI285705
EST:     CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAA                         GTAGGCATGATTGAGTTCATCGGAATATTGAACGTCAAGGTGAAAGGAGGC
genomic: CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAAgtaggcagca ... tgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC
EST: gi|29645547|gb|CB650554.1|CB650554
EST:     CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAA                         GTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC
genomic: CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAAgtaggcagca ... tgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC
EST: gi|9866250|gb|AU102000.1|AU102000
EST:     CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAA                         GTAGGCATGATTGAGTTCATCGGAATATTGAATGTCCAGGTGAAAGGAGGC
genomic: CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAAgtaggcagca ... tgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC
EST: gi|29657516|gb|CB653791.1|CB653791
EST:     TCAGTTCCAAGAGCGAA                         GTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC
genomic: TCAGTTCCAAGAGCGAAgtaggcagca ... tgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC
EST: gi|29645546|gb|CB650553.1|CB650553
EST:     CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAA                         GTACGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC
genomic: CCGGGAAACATGCAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAAgtaggcagca ... tgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcatgttctgcgactcttagattcaaatttagtaatccccgatttgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGCACCAACCTAGCCATCAGAGACATGTCAAGCAGTGATCCTTATGTAGTCC
                                          atttgat  putative branch site (score: 5)
                     attcaaatttagtaat  TA-rich tract