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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtctagaaattactccccttgcaacaaagaaagatttcgcttgttatgattgctagtatatctatcaattgctgtttttccagatatctcagttagcactcagttttgtttattggtccatgtgtgcagATATCTCAATTGGCACTGACATTCAAGGAAATTATTTTCGGCTACAGAAAACAATCTCAGTGCAAGCCACAAGTTTTCCGTAGTGTTTATGTTCATTGGG

Basic information

species Oryza sativa
transcript LOC_Os08g42600.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42600.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G016997_T01 (Zea mays), 3'ss of exon 13
gtctgtctagaaattactccccttgcaacaaagaaagatttcgcttgttatgattgcta-gtatatctatcaattgctgtttttccagatatctcagttagcactcagttttgtttattggtccatgtgtgcagATATCTCAATTGGCACTGACATTCAAGGAAATTATTTTCGGCTACAGAAAACAATCTCAGTGCAAGCCACAAGTTTTCCGTAGTGTTTATGTTCATTGGG
                                | |     |  | | | ||  |  | | ||   | ||| || || |      | |  |    | || | || | | |||   ||||||       | ||||||| |||||| ||  |||  |||||||||| ||| |||| || || || |||||| |||| ||||||||||||||||| || |||||||||||||||||| 
--------------------------------gtacatccttacatataattttgtcgaagttcttatattaactgataaaaa-ctatttcctactgtgatcattaaattt--cttattgacaacaatttgcagATCTCTCAACTGCAACTTTCATTCAAGGAGATTGTTTTTGGGTATAGGAAACAACCTCAATGCAAGCCACAAGTTTTTCGAAGTGTTTATGTTCATTGGC

upper sequence: LOC_Os08g42600.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G033828_T02 (Zea mays), 3'ss of exon 14
gtctgtctagaaattactccccttgcaacaaagaaagatttcgcttgttatgattgctagtatatctatcaattgctgtttttccagatatctcagttagcactcagtt--ttgtttattggtccatgtgtgcagATATCTCAATTGGCACTGACATTCAAGGAAATTATTTTCGGCTACAGAAAACAATCTCAGTGCAAGCCACAAGTTTTCCGTAGTGTTTATGTTCATTGGG
                                     || ||  |   ||| | | ||     |  |   | ||        | || |||| ||         ||| |   |   || |||    |     |||||| |||||| ||| |||  |||||||||| ||||||||||||||||| |||||| ||||||||||||||||||||||||| || || |||||||||||| 
-----------------------------------gtatatccttacatataaat-ctgtcggagttccaatttttaaccgatacaaatatttcctactatgttcattaaataccttgttgacaaaaccccgcagATCTCTCAACTGGAACTTTCATTCAAGGAGATTATTTTCGGCTACAGGAAACAACCTCAGTGCAAGCCACAAGTTTTCCGAAGCGTCTATGTTCATTGGC
















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|58675166|gb|CK063853.1|CK063853
EST:     ATCGGCACATCGATCAGATTATACTATGCAGCATATATGGAGTTGCTAAG                         ATATCTCAATTGGCACTGACATTCAAGGAAATTATTTTCGGCTACAGAAAA
genomic: ATCGGCACATCGATCAGATTATACTATGCAGCATATATGGAGTTGCTAAGgtctgtctag ... atgtgtgcagATATCTCAATTGGCACTGACATTCAAGGAAATTATTTTCGGCTACAGAAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttccagatatctcagttagcactcagttttgtttattggtccatgtgtgcagATATCTCAATTGGCACTGACATTCAAGGAAATTATTTTCGGCTACAGAAAACAATCTCAGTGCAAGCCACAAGTTTTCCGTAGTGTTTATGTTCATTGGG
                             ttttgtttatt  TA-rich tract