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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatatcatttagtcctctaatataaagatatgcgaatatcagtccagtgtgcctgaatgatcatcttaaatgcacgcgacgatcagcaaggacgaagttcatacctcattgtttttctgtacagttgattttttttcgtaatttccagATGGGACATTATTGCGGAAAGGCTGGGCTTCATGCTGGTTTTTGGTGATCTAGTGTTCATTCCGTTTACCTTCACCATTCAG

Basic information

species Oryza sativa
transcript LOC_Os01g25189.4
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g25189.6 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G473533_T06 (Zea mays), 3'ss of exon 8
gtaagtatatcatttagtcctctaatataaagatatgcgaatatcagtccagtgtgcctgaatgat-catcttaa-atgcacgcgacgatcagcaaggacgaagttcatacctcattgtttttctgtacagttgattttttttcgtaatttccagATGGGACATTATTGCGGAAAGGCTGGGCTTCATGCTGGTTTTTGGTGATCTAGTGTTCATTCCGTTTACCTTCACCATTCAG
||||||||||||  |  ||             ||  || |||| |     | | | ||||||  |   || || | ||   |     ||| |  || || || |  |||||     | || | ||| |||    ||  ||         |||||| |||||||||||||| ||||| ||||| ||||||||||| |||||||||||||| ||||| || || |||||||| ||||||
gtaagtatatcacatgctctc-----------attggcaaataac---ttactatccctgaacaaaatatgttgagatattctgtgggatgattaaagatgatgaacatac-----tattctcctgaacaaaatatcgttgag-acctcttccagGTGGGACATTATTGCTGAAAGACTGGGTTTCATGCTGGTGTTTGGTGATCTAGTTTTCATCCCTTTCACCTTCACTATTCAG

upper sequence: LOC_Os01g25189.6 (Oryza sativa), 3'ss of exon 11
lower sequence: Vv08s0007g03930.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtatatcatttagtcctctaatataaagatatgcgaatatcagtccagtgtgcctgaatgatcatcttaaatgcacgcgacgat--cagcaaggacgaagttcatacctca--ttgtttttctg-tacagttgattttttttcgtaatttccagATGGGACATTATTGCGGAAAGGCTGGGCTTCATGCTGGTTTTTGGTGATCTAGTGTTCATTCCGTTTACCTTCACCATTCAG
                                                         ||   |  |  ||||     ||  |||  ||   |     | |  | || ||   | |  ||     ||||   ||| || | | |  |  |  |||  |||||||| || |||||||| ||  ||||||||||| |||| ||||| ||||||||||  || || ||||| || | ||| |||
---------------------------------------------------------cttgcttcttgtctttctatcagtcgataatagtaatgttgtcacactttatgatttaatttacaaatctgactcagctg-tatgtggttatcttttatagATGGGATATCATTGCGGAGAGATTGGGCTTCATGTTGGTGTTTGGGGATCTAGTGTGGATCCCTTTTACTTTTAGCATCCAG
















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|58679610|gb|CK068297.1|CK068297
EST:     TGGTATATTGTAGATTACTTCGTTCATGAAGAACTCATGACTTCAAC                         ATGGGACATTATTGCGGAAAGGCTGGGCTTCATGCTGGTTTTTGGTGATCT
genomic: TGGTATATTGTAGATTACTTCGTTCATGAAGAACTCATGACTTCAACgtaagtatat ... taatttccagATGGGACATTATTGCGGAAAGGCTGGGCTTCATGCTGGTTTTTGGTGATCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagttcatacctcattgtttttctgtacagttgattttttttcgtaatttccagATGGGACATTATTGCGGAAAGGCTGGGCTTCATGCTGGTTTTTGGTGATCTAGTGTTCATTCCGTTTACCTTCACCATTCAG
                             agttgat  putative branch site (score: 5)
                                   ttttttttcgt  CT-rich tract
                                  attttttttcgtaatt  TA-rich tract