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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttaagagggaaacactgtggtatatattgtatgaaaatctgattttaatttgctattttatatatttttgcctgagtatgcttcattattcaatacagTCTAGTGAGACGCTTTCAGTCTATCTCGAGTATGTTTCTGGGGGCTCTATCCATAAGTTGCTTCAAGAGTATGGTGCATTTGGGGAGGCAGTCCTTCGGA

Basic information

species Oryza sativa
transcript LOC_Os11g10100.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g10100.2 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------------------tgttaagagggaaacactgtggtatatattgtatgaaaatctgattttaatttgct-atttta-------------tatatttttgcctg-------agtatgcttcattattcaata--cagTCTAGTGAGACGCTTTCAGTCTATCTCGAGTATGTTTCTGGGGGCTCTATCCATAAGTTGCTTCAAGAGTATGGTGCATTTGGGGAGGCAGTCCTTCGGA
                                                                 ||   | |    ||  || |  | |       ||| || |||  ||  ||| || | |||  |             | |||||   ||||       |  || ||  ||| |    |   |||  |   || || || ||||| ||| | |||||||| ||||| ||||||||||| ||||| |||||||| |||||| | |||  |||  | ||| |||  |
gtatgagctactctcctaatgtttaaaaaagttagggttcatgcatctactcacccatgcatgagtgcacacacatgaatgctatccttttcccgacatgcaa-tctctttccaatctgttcattccaagtgagtggacggtgtatttgaccctgttcttgtaacattctggattgtcatgttgtcagGGTGAAGAAACACTATCAGTTTATTTGGAGTATGTCTCTGGTGGCTCTATCCACAAGTTACTTCAAGAATATGGTCCCTTTAAGGAACCTGTCATTCAAA
















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|109974299|gb|DT806830.1|DT806830
EST:     GTACTATGGCAGTGATCTG                         TCTAGTGAGACGCTTTCAGTCTATCTCGAGTATGTTTCTGGGGGCTCTATC
genomic: GTACTATGGCAGTGATCTGgtaaatatag ... ttcaatacagTCTAGTGAGACGCTTTCAGTCTATCTCGAGTATGTTTCTGGGGGCTCTATC
EST: gi|29680776|gb|CB677051.1|CB677051
EST:     TGAGTCAGTTGTCACATCCAAATATTGTGCAGTACTATGGCAGTGATCTG                         TCTAGTGAGACGCTTTCAGTCTATCTCGAGTATGTTTCTGGGGGCTCTATC
genomic: TGAGTCAGTTGTCACATCCAAATATTGTGCAGTACTATGGCAGTGATCTGgtaaatatag ... ttcaatacagTCTAGTGAGACGCTTTCAGTCTATCTCGAGTATGTTTCTGGGGGCTCTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaatttgctattttatatatttttgcctgagtatgcttcattattcaatacagTCTAGTGAGACGCTTTCAGTCTATCTCGAGTATGTTTCTGGGGGCTCTATCCATAAGTTGCTTCAAGAGTATGGTGCATTTGGGGAGGCAGTCCTTCGGA
     tttgctattttatata  TA-rich tract