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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagattacacaaactcaaaacaatcttctatacattctattacatttcagctagcacttcactaatcaatttatctgtaacaatattttcacatttgatttcttctccatagGTGGATATTATTACGGGAAACTCAAATTTCCACCTGATTACCCTTTTAAGCCTCCAAGCATCAGGTAATGGAACTTTATTTTGTAATATTGAATTACTGA

Basic information

species Oryza sativa
transcript LOC_Os06g09330.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g09330.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G177276_T01 (Zea mays), 3'ss of exon 3
gtaaagattacacaaactcaaaacaatcttctatacattctattacatttcagctagcacttcactaatcaatttatctgtaacaatattttcacatttgatttcttct--ccatagGTGGATATTATTACGGGAAACTCAAATTTCCACCTGATTACCCTTTTAAGCCTCCAAGCATCAGGTAATGGAACTTTATTTTGTAATATTGAATTACTGA
|||||||| | ||| |||  | || |  || | |||   ||   | ||||          ||   || | |  | ||||  |||    ||| |||  || | ||   ||  |   ||||||||||||||| ||||| |||||||||||||| ||||| |||||||| ||||||||||||||                                    
gtaaagatcatacatact--ataccacattatctactgcctccaatattt--------gttttgttactta--taatctcaaacg---tttccacgcttcaatttccctacctgcagGTGGATATTATTATGGGAAGCTCAAATTTCCACCGGATTATCCTTTTAAACCTCCAAGCATCAG------------------------------------

upper sequence: LOC_Os06g09330.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G116919_T02 (Zea mays), 3'ss of exon 3
gtaaagattacacaaactcaaaacaatcttctatacattctattacatttcagctagcacttcactaatcaatttatctgtaacaatatttt-cacattt-gatttcttctccatagGTGGATATTATTACGGGAAACTCAAATTTCCACCTGATTACCCTTTTAAGCCTCCAAGCATCAGGTAATGGAACTTTATTTTGTAATATTGAATTACTGA
|||||||| | |   |||  | || |   | | |||   ||   | ||||    |   ||||           | |||| ||||||  |||| ||| |||  |||||    |   |||||||||||| || |||||||||||||||||||| ||||| ||||||||||||||||| |||||                                    
gtaaagatcatatgtact--ataccacaatatctactccctccaatatttgtattgttactta----------taatctctaacaaagtttttcacgtttcaatttcccacctgcagGTGGATATTACTATGGGAAACTCAAATTTCCACCGGATTATCCTTTTAAGCCTCCAAGTATCAG------------------------------------
















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|58693005|gb|CK081692.1|CK081692
EST:     TTATATTCCAGATTTTGTACTTGAAGGTAGTGCTGGCACACCATTTGAAG                         GTGGATATTATTACGGGAAACTCAAATTTCCACCTGATTACCCTTTTAAGC
genomic: TTATATTCCAGATTTTGTACTTGAAGGTAGTGCTGGCACACCATTTGAAGgtaaagatta ... ttctccatagGTGGATATTATTACGGGAAACTCAAATTTCCACCTGATTACCCTTTTAAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcactaatcaatttatctgtaacaatattttcacatttgatttcttctccatagGTGGATATTATTACGGGAAACTCAAATTTCCACCTGATTACCCTTTTAAGCCTCCAAGCATCAGGTAATGGAACTTTATTTTGTAATATTGAATTACTGA
                                    tttgatttcttctcc  CT-rich tract
     taatcaatttatctgt  TA-rich tract