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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtcctccttaagtcttccatccagtattttttgtcattttgacacataagttcatgcttaccaaatgtgttcctttttcatgcagGAGGATTTCGAAAAGTTGGTCTCCAACTTCCGTCGCATAAGATTTGAATCTACT

Basic information

species Oryza sativa
transcript LOC_Os11g03470.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03470.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G151977_T01 (Zea mays), 3'ss of exon 4
---------------gtaatgtcctccttaagtcttccatccagtattttttgtcattttgacacataa-gttca-----tgcttaccaaatgtgttcctttttcatgcagGAGGATTTCGAAAAGTTGGTCTCCAACTTCCGTCGCATAAGATTTGAATCTACT
                |  | | |||    | |  ||  |||           ||    || | |||   ||||      |  ||| ||| |   ||   | ||  |||||||||||||  | ||||||||||||||||||||||| ||||||||||||||||||
gtaatactatttgacttgctcttctctgataatactctttcctaatgccagaatcgcactgcctcatgttgttctctgattaattaacaagtacatttgatgttgttgcagGAGGATTTTCAGAAGTTGGTCTCCAACTTCCGTCGGATAAGATTTGAATCTACT
















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|29685331|gb|CB681606.1|CB681606
EST:     GTGGATGTTGTGTTGTATTGGCAAACAAGAAACCGCTTACTTGTGCTTAT                         GAGGATTTCGAAAAGTTGGTCTCCAACTTCCGTCGCATAAGATTTGAATCT
genomic: GTGGATGTTGTGTTGTATTGGCAAACAAGAAACCGCTTACTTGTGCTTATgtaatgtcct ... tttcatgcagGAGGATTTCGAAAAGTTGGTCTCCAACTTCCGTCGCATAAGATTTGAATCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcattttgacacataagttcatgcttaccaaatgtgttcctttttcatgcagGAGGATTTCGAAAAGTTGGTCTCCAACTTCCGTCGCATAAGATTTGAATCTACT
                        tgcttac  putative branch site (score: 2)
                                   tgtgttcctttttc  putative PPT
                                           tttttcat  TA-rich tract