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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactggaatctttttcccccacgaagaaattcagcaatttggtttcacggagcatagagcttgggaattctgcaaaaaaaaaaaaagaaaaaaagttaatgagatttgacgcgctaacgctaaatttggtgaaatgttgtgctccttagGTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG

Basic information

species Oryza sativa
transcript LOC_Os04g45190.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g45190.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G155543_T01 (Zea mays), 3'ss of exon 2
gtaactggaatctttttcccccacgaagaaattcagcaatttggtttcacggagcatag---agcttgggaattctgcaaaaaaaaaaaaagaaaaaaagttaatgagatttgacgcgctaacgctaaatttggtgaaatgttgtgctccttagGTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG
                            ||  || ||| | ||  | | |        |   |||| |     | ||  ||    | | |||  |  || |   ||| |       || | | | ||   ||  ||  || ||| |  |   |||| ||||| || ||||| ||||||||||| ||| |||| ||||| ||||| ||||| || |||||||||||||||||||| |
--------------------------gtaagctcggcattctgaatcccctctttcccgcccagctagattgctttgtcaaggtcatagaagtcagcaactgcgtgaaa-------cgttga-gttactattaatg--attttgagtccgacagGTTAAGACGACGAGCCCGAAGAAGTACTGTGTCCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG
















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|33680406|gb|CF308645.1|CF308645
EST:     CATGCTCCATGCAGCTGACGAACAGAACAGATGACTACATCGCCTTTAAG                         GTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATT
genomic: CATGCTCCATGCAGCTGACGAACAGAACAGATGACTACATCGCCTTTAAGgtaactggaa ... tgctccttagGTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATT
EST: gi|163929427|gb|EG713396.1|EG713396
EST:     CATGCTCCATGCAGCTGACGAACAGAACAGATGACTACATCGCCTTTAAG                         GTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATT
genomic: CATGCTCCATGCAGCTGACGAACAGAACAGATGACTACATCGCCTTTAAGgtaactggaa ... tgctccttagGTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaatgagatttgacgcgctaacgctaaatttggtgaaatgttgtgctccttagGTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG
                                             tgctcctt  CT-rich tract
                          taaattt  TA-rich tract