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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCTTCTTGTGGAGTATTGATAAGAAGGATTTCTTTCTATGGGCAATCACATTCATTACAACATTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtgtaaatttattgctgattactgacatgtggataagataccaaaatgttctgaattcttttgatggtaacatcttccttcgtag

Basic information

species Oryza sativa
transcript LOC_Os09g06499.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g06499.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G068212_T01 (Zea mays), 5'ss of exon 12
TATCTTCTTGTGGAGTATTGATAAGAAGGATTTCTTTCTATGGGCAATCACATTCATTACAACATTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaag--tgtaa---atttattgctgattactgacatgtggataag-ataccaaaatgttctgaattcttttgatggtaacatcttccttcgtag
 ||||||||||||  |||||||||||| ||||||||| |||||||||||||||| || ||||||||| ||||||| ||||||||||| || |||||||||||||      ||   || ||||  |  ||  | | |  |  ||     |    |||    |     | |||| || |||  || || |||  |||
CATCTTCTTGTGGGCTATTGATAAGAAAGATTTCTTTTTATGGGCAATCACATTTATCACAACATTAGTTTTTGGCATTGAGATTGGCGTCCTTGTTGGGgtaaaatcacaagtcatctatttttagtttatcatagttttatcgttgtcatgaaagaaacattccttttttaattgtattatttttctttttag

upper sequence: LOC_Os09g06499.2 (Oryza sativa), 5'ss of exon 13
lower sequence: Vv13s0019g00010.t01 (Vitis vinifera), 5'ss of exon 12
TATCTTCTTGTGGAGTATTGATAAGAAGGATTTCTTTCTATGGGCAATCACATTCATTACAACATTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtg--taaa----tttat--tgctgattactgacatgtggataagataccaaaatgttctgaattcttttga-----tggtaacatcttccttcgtag
||| || || ||| || | |||||||| |||||  |||| ||| |  | ||   || ||  |||||  |  ||||||||||||||||||| ||||||||||||||    ||||    |||||  |  ||  ||||   |  | ||| |    |||| |  |    |||| |  |||     |  | | || | |||| |   
TATTTTTTTATGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCCTTACCAGCACTATGACATTGTTCCTTGGTATTGAGATTGGTGTCCTTGTTGGGgtaagaacttaaagcagtttatgctaatgcctactataagattgatcattatccaacacatgtgaaattttcatgagttattattcagatatccctttga--
















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|29661763|gb|CB658038.1|CB658038
EST:     CATTCATTACAACATTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGG                         GTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
genomic: CATTCATTACAACATTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtgtaa ... tccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
EST: gi|29674507|gb|CB670782.1|CB670782
EST:     TTAATTTTTGGTATTGAGATTGGTGTTCTTGTGGGG                         GTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
genomic: TTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtgtaa ... tccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
EST: gi|86900178|gb|CI300201.1|CI300201
EST:     ATTTTTGGTATTGAGATTGGTGTTCTTGTTGGG                         GTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
genomic: ATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtgtaa ... tccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC