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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttatgtgagtgcataatgatgaggagatgagaaacttatttaatactatgcttattggtgtggcactctccatttttagtttttagttacatttcttaattttgaagacgttaatttattttcttataagcatattttctgtgcctacaccctgattgaggttaaatttgtgttcttatggtctttggatagAAAAAATCCAGGCTACATCCAAGCCAATACCAAGCGACTTGATCCAAAG

Basic information

species Oryza sativa
transcript LOC_Os11g34860.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g34860.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G090559_T01 (Zea mays), 3'ss of exon 7
gtaggttatgtgagtgcataatgatgaggagatgagaaacttatttaatactatgcttattggtgtggcactctccatttttagtttttagttacatttcttaattttgaagacgttaatttattttcttataagcatattttctgtgcctacaccctgattgaggttaaatttgtgttcttatggtctttggatagAAAAAATCCAGGCTACATCCAAGCCAATACCAAGCGACTTGATCCAAAG
                                                                                      || |   |    |  ||   | |||  |  |  ||| || || |||        | | ||| |||   || |  || ||| |     ||||||||| || | ||| || ||||||||||| ||||||||| | || ||| |||||||| |||| ||||||
--------------------------------------------------------------------------------------ttgatgcattcgtgctaccgtggaaatctctgttttgttctcctattg------tctgtgtccctgttccatacttaaggct-----tgtgttcttttgctgttttgacagAAAAAATCCTGGCTACATCAAGGCAAATTCCAAGCGAATTGACCCAAAG
















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|27576416|gb|CA999110.1|CA999110
EST:     GCTATTTCTCTTGCCTTTGCTTCATTGGTGATGTTCTACAGAGTAAGCAG                         AAAAAATCCAGGCTACATCCAAGCCAATACCAAGCGACTTGATCCAAAG
genomic: GCTATTTCTCTTGCCTTTGCTTCATTGGTGATGTTCTACAGAGTAAGCAGgtaggttatg ... ctttggatagAAAAAATCCAGGCTACATCCAAGCCAATACCAAGCGACTTGATCCAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgtgcctacaccctgattgaggttaaatttgtgttcttatggtctttggatagAAAAAATCCAGGCTACATCCAAGCCAATACCAAGCGACTTGATCCAAAG
            ccctgat  putative branch site (score: 4)
                                            tcttt  putative PPT
                        ttaaatttgt  TA-rich tract