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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctaggaaacattgtagcaggaaatccacactactgccactgctatccttatttgtgcctgcagcaaaattaacacaagcatggtttctgtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAGGAGTTCAACTTTGCTGACACTATTCACATATGGGACACACTATTAAGTG

Basic information

species Oryza sativa
transcript LOC_Os01g68010.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68010.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G068392_T01 (Zea mays), 3'ss of exon 7
----tgctaggaaacattgtagcaggaaatccacactactgccactgctatccttatttgtgcctgcagcaaaattaacacaagcatggtttctgtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAGGAGTTCAACTTTGCTGACACTATTCACATATGGGACACACTATTAAGTG
    |  |  |||  ||  ||| ||   ||  | | | ||      ||  |     | |   | | | ||||   |   ||    |  ||| ||   ||||||| ||||||| ||||||||||||||| | ||||| ||  ||||| | |||||||| |||||||| || ||||| |||||||| |||||||||||||||||||
taagtcttgagaagaatcctag-agaggatttaaatttctaaactagcccttagagtgtcatctttccgcaagcatcgtaccca-actgttgct--ctctgcagGTTAATCCCCAGTTCTACGCATTCAGATGGATAACCTTACTGCTGACCCAGGAATTCAACTTCGCCGACACCATTCACATCTGGGACACACTATTAAGTG
















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|44674637|gb|CR288071.1|CR288071
EST:     GAAGTATGATGGAGAGCTTCAGCGTCATTTGGAAATAACAAC---AG-AA                         ATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
genomic: GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAACAGAAGTAAgtatgttctt ... gtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
EST: gi|88981591|gb|CI027202.1|CI027202
EST:     GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAAC---AG-AA                         ATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
genomic: GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAACAGAAGTAAgtatgttctt ... gtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
EST: gi|84117083|gb|CD150850.1|CD150850
EST:     GAAGTATGATGGAGAGCTTCAGCGTCATTTGGAAATAACAACAGAAGTAA                         ATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
genomic: GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAACAGAAGTAAgtatgttctt ... gtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
EST: gi|88903574|gb|CI089112.1|CI089112
EST:     GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAAC---AG-AA                         ATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
genomic: GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAACAGAAGTAAgtatgttctt ... gtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
EST: gi|86422689|gb|CI060262.1|CI060262
EST:     GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAAC---AG-AA                         ATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG
genomic: GAAGTATGATGGAGAGCTTCAGCGTTATTTGGAAATAACAACAGAAGTAAgtatgttctt ... gtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccttatttgtgcctgcagcaaaattaacacaagcatggtttctgtttctgcagATTAATCCTCAGTTCTACGCATTCCGGTGGATTACGCTACTGTTAACCCAGGAGTTCAACTTTGCTGACACTATTCACATATGGGACACACTATTAAGTG
                       aattaac  putative branch site (score: 2)
                                        tttctgtttct  putative PPT
                     aaaattaaca  TA-rich tract