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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcaagttatgcatgactgtggataggtcaactaaaatatctatctgttcacatccttgcaataaactttgtcactagttattttctgtcttatgagttattacttcgtagCTTGCAGAGGGCATCAAAGTTGCCTGCTGGGCGGGTACATAAGCCACTCTGGAAACAG

Basic information

species Oryza sativa
transcript LOC_Os03g18080.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G047894_T04 (Zea mays), 3'ss of exon 4
gtaagtatcaagttatgcatgactgtggataggtcaactaaaatatctatctgttcacatccttgcaataaactttgtcactagttattttctgtcttatgagttattacttcgtagCTTGCAGAGGGCATCAAAGTTGCCTGCTGGGCGGGTACATAAGCCACTCTGGAAACAG
     | |   ||||| |  || |||   ||  | |  | | |||   ||       |     || |||   | |           || |   |   ||     ||| | |  ||||||||||||||||||| |||||| |||||||| |||||||||| ||||| ||||| |||
---tttcttttgttatactggattgtatctaactga--tgagatagaaata---atgcgatgatggaatgctcctca---------atgtaaagctataaacactatgattatgtagCTTGCAGAGGGCATCCAAGTTGGCTGCTGGGAGGGTACATAAACCACTATGGAAGCAG
















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|88298501|gb|CI563496.1|CI563496
EST:     AAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTTGAA                         CTTGCAGAGGGCATCAAAAGTTGCCTGCTGGGCGGGTACATAAGCCAACT
genomic: AAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACT-GAAgtaagtatca ... tacttcgtagCTTGCAGAGGGCATCAAA-GTTGCCTGCTGGGCGGGTACATAAGCCA-CT
EST: gi|117222519|gb|CT845898.1|CT845898
EST:     GAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAA                         CTTGCAGAGGGCATCAAAGTTGCCTGCTGGGCGGGTACATAAGCCACTCTG
genomic: GAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAAgtaagtatca ... tacttcgtagCTTGCAGAGGGCATCAAAGTTGCCTGCTGGGCGGGTACATAAGCCACTCTG
EST: gi|29624693|gb|CB629704.1|CB629704
EST:     GAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAA                         CTTGCAGAGGGCATCAAAGTTGCCTGCTGGGCGGGTACATAAGCCACTCTG
genomic: GAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAAgtaagtatca ... tacttcgtagCTTGCAGAGGGCATCAAAGTTGCCTGCTGGGCGGGTACATAAGCCACTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcaataaactttgtcactagttattttctgtcttatgagttattacttcgtagCTTGCAGAGGGCATCAAAGTTGCCTGCTGGGCGGGTACATAAGCCACTCTGGAAACAG
                                            ttacttc  CT-rich tract
                   tagttatttt  TA-rich tract