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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacagttattattttatttgtttgtaaaaggtgtctgttttccaaatagcagagcaatgtacacttccattcctatgattctgcagGTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTGAAGTTGTGAAAACTGCCAAGTCTCTTGGCTATACAGAACCAG

Basic information

species Oryza sativa
transcript LOC_Os11g03470.2
intron # 6
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 6
lower sequence: GRMZM2G151977_T01 (Zea mays), 3'ss of exon 6
gtacacagttattattttatttgtttgtaaaaggtgtctgttttccaaatagcagagcaatgtacacttc-cattcctatgattctgcagGTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTGAAGTTGTGAAAACTGCCAAGTCTCTTGGCTATACAGAACCAG
|||  ||| ||||| | |||| || |  ||| |||| | |||||   | ||  | |  | |  |   ||  | ||| ||||  | || |||||||||||| ||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||||| |||||||||||||||||||
gtatgcagctattagtctatt-gtgta-aaatggtgacagtttt---attaaaaaaatattacaagtttttccttcatatggatttgtagGTACACTTGGGTATGTGATGAGTGAGCTTGAGGATGGAAAGAAATTTAGTGAAGTTGTAAAAACTGCCAAGTCCCTTGGCTATACAGAACCAG
















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:     TATTATTGCCTCTGGAGATCCAGTTTCTCGTATTGTTGGCAGTCTGAGTG                         GTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTG
genomic: TATTATTGCCTCTGGAGATCCAGTTTCTCGTATTGTTGGCAGTCTGAGTGgtacacagtt ... gattctgcagGTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTG
EST: gi|46573748|gb|CN487730.1|CN487730
EST:     TATTATTGCCTCTGGAGATCCAGTTTCTCGTATTGTTGGCAGTCTGAGTG                         GTACACTTGGTCATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTG
genomic: TATTATTGCCTCTGGAGATCCAGTTTCTCGTATTGTTGGCAGTCTGAGTGgtacacagtt ... gattctgcagGTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTG
EST: gi|87036135|gb|CI189582.1|CI189582
EST:     CCAGTTTCTCGTATTGTTGGCAGTCTGAGTG                         GTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTG
genomic: CCAGTTTCTCGTATTGTTGGCAGTCTGAGTGgtacacagtt ... gattctgcagGTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctgttttccaaatagcagagcaatgtacacttccattcctatgattctgcagGTACACTTGGTTATGTGATGAGTGAGCTGGAGGATGGAAAGAAATTTAGTGAAGTTGTGAAAACTGCCAAGTCTCTTGGCTATACAGAACCAG
                                          tatgatt  TA-rich tract