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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGAAGGGCAACCCTTTGTGTCCATCCCGATAAACTACAACAAAGGGGTGCTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatttgttcacatcttatgcatattcttgtggttttcatctttgaatttccacccccagttacttatcagcaattgctaattttcagagaagtt...

Basic information

species Oryza sativa
transcript LOC_Os01g44310.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g44310.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G316635_T01 (Zea mays), 5'ss of exon 6
TAGAAGGGCAACCCTTTGTGTCCATCCCGATAAACTACAACAAAGGGGTGCTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatttgttcacatc---ttatgcatattcttgtggttttcatct--ttgaatttccacccccagttacttatcagcaattgctaattttcagagaagtt
 || | ||||||||||||||||||||| |||||| | || ||||| ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||   || |||| |||  |    ||||  ||    |  |  | | ||  |  || | |||| |        |   |||  ||   |||||   | |  ||     
CAGGAAGGCAACCCTTTGTGTCCATCCAGATAAAGTGCAGCAAAGAGGTGCTACAATCAGACAGAAATACATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtgtgttctttggtcatcttgctttataaattagttacttatctacagttgcttaagtttcaatatttttgttggtat-ggctgctgctatactcccaagt----

upper sequence: LOC_Os01g44310.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G316635_T03 (Zea mays), 5'ss of exon 6
TAGAAGGGCAACCCTTTGTGTCCATCCCGATAAACTACAACAAAGGGGTGCTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatttgttcacatc---ttatgcatattcttgtggttttcatct--ttgaatttccacccccagttacttatcagcaattgctaattttcagagaagtt--------------------------------------------------------------------
 || | ||||||||||||||||||||| |||||| | || ||||| ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||   || |||| |||  |    ||||  ||    |  |  | | ||  |  || | |||| |        |   |||  ||   |||||   | |  ||   |                                                                     
CAGGAAGGCAACCCTTTGTGTCCATCCAGATAAAGTGCAGCAAAGAGGTGCTACAATCAGACAGAAATACATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtgtgttctttggtcatcttgctttataaattagttacttatctacagttgcttaagtttcaatatttttgttggtat-ggctgctgctatactcccaagttctgttagcctcagtcacctctgggagactgggactatgttgatgtttctgcattgctgtggtgcttcacag

upper sequence: LOC_Os01g44310.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv04s0023g02070.t01 (Vitis vinifera), 5'ss of exon 7
TAGAAGGGCAACCCTTTGTGTCCATCCCGATAAACTACAACAAAGGGGTGCTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatttgttcacatcttatgcatattcttgtggttttcatctttgaatttccacccccagttacttatcagcaattgctaattttcagagaagtt---
|||||  || || |||||||| ||||| || ||| |||||||||||||||| |  ||   |||||| || || ||||| ||||| ||||||||||| |||||   | |   ||   |   || |   |       | | |||| |  || ||| || |   |     |||||  |    || |     |  ||     |    
TAGAAAAGCCACTCTTTGTGTTCATCCTGACAAATTACAACAAAGGGGTGCAAGCATTCAACAGAAGTACATATGTGAAAAGGTTTTTGATCTTCTAAAGgtgtgtcaccagtctgc-cattttctttcccaaaattgatttc-tgattaaatgtctaatacttac-acttaaaactgtttccatgcctataggcctctaaac

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|58680897|gb|CK069584.1|CK069584
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|38480580|gb|CF964669.1|CF964669
EST:     TTTGTGAGAAGGTG-TTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: TTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|29617071|gb|CB622083.1|CB622083
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|58589020|gb|CF987328.1|CF987328
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|29621424|gb|CB626435.1|CB626435
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG