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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTACAGGAAAGCAGAGGATATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagatactctcatgtcactgtgcctcttcccttataatatttgctctttctgtagtcacgaagttagttatttttagttgacatgtgtaaatcctccatcag

Basic information

species Oryza sativa
transcript LOC_Os02g58580.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g58580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G017365_T08 (Zea mays), 5'ss of exon 6
TTTACAGGAAAGCAGAGGATATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagatactctcatgtcactgt--gcctcttcccttata-atatt-tgctctt-----tctgtagtcacgaa--gttagttatttttagttgacatgtgtaaatcctccatcag
|||||||||| ||||||||||||||||| ||||| || |||||||||||  | || |||||| ||||||||||   |  | || || | || |||  | |||||||||| |  | ||| | || ||     |   | ||  | |   |||  |  |  ||   ||||   ||| | | ||    |||
TTTACAGGAATGCAGAGGATATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatg-cattcccagg-cattgttggactcttcccttgtgcacattatacttttgtaccttgctggttgccacacgttgatattgattgactgacgcttgttatttctttcacag

upper sequence: LOC_Os02g58580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G017365_T07 (Zea mays), 5'ss of exon 6
TTTACAGGAAAGCAGAGGATATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagatactctcatgtcactgt--gcctcttcccttata-atatt-tgctctt-----tctgtagtcacgaa--gttagttatttttagttgacatgtgtaaatcctccatcag-----
|||||||||| ||||||||||||||||| ||||| || |||||||||||  | || |||||| ||||||||||   |  | || || | || |||  | |||||||||| |  | ||| | || ||     |   | ||  | |   |||  |  |  ||   ||||   ||| | | ||    |||     
TTTACAGGAATGCAGAGGATATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatg-cattcccagg-cattgttggactcttcccttgtgcacattatacttttgtaccttgctggttgccacacgttgatattgattgactgacgcttgttatttctttcacagtgcag

upper sequence: LOC_Os02g58580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G017365_T02 (Zea mays), 5'ss of exon 5
TTTACAGGAAAGCAGAGGATATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagatactctcatgtcactgt--gcctcttcccttata-atatt-tgctctt-----tctgtagtcacgaa--gttagttatttttagttgacatgtgtaaatcctccatcag-----
       ||| ||||||||||||||||| ||||| || |||||||||||  | || |||||| ||||||||||   |  | || || | || |||  | |||||||||| |  | ||| | || ||     |   | ||  | |   |||  |  |  ||   ||||   ||| | | ||    |||     
-------GAATGCAGAGGATATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatg-cattcccagg-cattgttggactcttcccttgtgcacattatacttttgtaccttgctggttgccacacgttgatattgattgactgacgcttgttatttctttcacagtgcag

upper sequence: LOC_Os02g58580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv08s0007g06550.t01 (Vitis vinifera), 5'ss of exon 6
TTTACAGGAAAGCAGAGGATATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagatactctcatgtcactgtgcctcttcccttataatatttgctctttctgtagtcacgaagttagttatt--tttagttgacatgtgtaaatcctccatcag-----------------------------------------------------------------------------------------
| ||||||||||||||||||||||| || ||||| || || |||||||||||||| |||||  |||| |||||  |||  |||||      || | ||    |||||    |       ||   ||        ||  | |||  |    |   || |||||  | ||  |  |  ||                                                                                         
TCTACAGGAAAGCAGAGGATATGAACTACCACTCAGTTTGCTTGCATGTTCTTGCAGATTCTATACGCAGgtac-agaagctctctctctcctctcccctcacccttcccctccccatcctcaatgcgccatataacattgttgctggcgtgtgtggcatgttcatatggttaactagacttgcatgtatttatattatcttgtgctgttttttattttcttgttggtagctcaatcttaagttggtgtccatcaattgtttctcag

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|8858691|gb|AU096009.1|AU096009
EST:     ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAG                         TGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
genomic: ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagata ... cctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
EST: gi|29661174|gb|CB657449.1|CB657449
EST:     ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAG                         TGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
genomic: ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagata ... cctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG