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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTTGGGGCACTTGCTATTGCTAAACTGCTCGGTGTCCCTCTAGTGATGTCCTATCACACCCATGTCCCAGTgtaagtaaatactgaattatactgcaacagattcttttttttcctgggcaattcagtagtttactgttcatatttcatttcaggtttttttattgtaaag...

Basic information

species Oryza sativa
transcript LOC_Os01g04920.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g04920.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G477503_T01 (Zea mays), 5'ss of exon 4
--------------------------GTTTTTGGGGCACTTGCTATTGCTAAACTGCTCGGTGTCCCTCTAGTGATGTCCTATCACACCCATGTCCCAGTgtaagtaaatactgaattatactgcaacagattcttttttttcctgg--gcaattcagtagtttactgttcatatttcatttcaggtttttttattgtaaag
                          |||||||| || || |||||||| || || |||||||| || ||||| |||||||||||||||||||| |||||||||||  |   |||| | || |||| ||  || |  |     | |   | | |||||   |||    ||   |||  ||   |  | ||||| ||| |   
ATGACTAAAGTTCATTACTCTTTCAGGTTTTTGGAGCTCTAGCTATTGCCAAGCTACTCGGTGTGCCCCTAGTCATGTCCTATCACACCCATGTTCCAGTgtaagttgactatgaactttattgcaccaagttttactgcaaacagacagaagttcag--atttttcattgccattgaatcatatttctttttcttgcag--

upper sequence: LOC_Os01g04920.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv08s0007g01940.t01 (Vitis vinifera), 5'ss of exon 5
GTTTTTGGGGCACTTGCTATTGCTAAACTGCTCGGTGTCCCTCTAGTGATGTCCTATCACACCCATGTCCCAGTgtaagtaaa-tactgaattatactgcaacagattctttttttt-cctgggcaattcagtagtttactgttcatatttcatttcaggtttttttattgtaaag
|| ||||| || ||   |||||| |||||  |  |||| ||| |||||||||| |||||||||||||| ||||||| |||  | | |||  ||   || |   ||||  || ||      |      || | |  |  ||   |  || || | |  ||  |       | ||   
GTCTTTGGTGCTCTCTTTATTGCAAAACTATTGTGTGTTCCTATAGTGATGTCTTATCACACCCATGTTCCAGTgtgagtttacttctgctttcatcttcctgagataattcttagcatttatatgctttaatc-tgcacccatattaattgagtggagaatccacatgtttatt-
















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|4715717|gb|AU056833.1|AU056833
EST:     AAACTGCTCGGTGTCCCTCTAGTGATGTCCTATCACACCCATGTCCCAGT                         ATACATTCCAAGATATACATTTAGCTGGCTTGTAGAGCCAATGTGGCAAGT
genomic: AAACTGCTCGGTGTCCCTCTAGTGATGTCCTATCACACCCATGTCCCAGTgtaagtaaat ... ccccctgcagATACATTCCAAGATATACATTTAGCTGGCTTGTAGAGCCAATGTGGCAAGT