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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtactttttaatattcacgcctccaattacatgatcatggaaactttgatatttggcacagtaatataggtccctttagcaagttttggacattgtgtgtgttggaattcgattggttcccacagaagtaatcgtcgatgtattgtcaatctatcatgcagATTGGACATCAGCAGCTCACATTTCAGTACCTCTATTCGTCTGATCGAGGAGTGAAATACAAAAACATGTCTGTTCTTTCGACTATTTCTGTGCTTCCTT

Basic information

species Oryza sativa
transcript LOC_Os01g22390.3
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g22390.2 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G118641_T01 (Zea mays), 3'ss of exon 17
gtatgtactttttaatattcacgcctccaattacatg-atcatgga--aactttgatatttggcacagtaatataggtccctttagcaagttttggacattgtgtgtgttggaa--ttcgattggttcccacagaagtaatcgtcgatgtattgtcaatctatcatgcagATTGGACATCAGCAGCTCACATTTCAGTACCTCTATTCGTCTGATCGAGGAGTGAAATACAAAAACATGTCTGTTCTTTCGACTATTTCTGTGCTTCCTT
            ||| | |  | | |    | ||| | ||||| |   ||  |||| ||||   || |   |  | || ||   || |  ||      |     | | ||| ||  |   ||||| ||| |   |||  ||  || || |||| | ||        |||||||||||||||||||||  || ||||| || | |||||| ||||  |||| |||||| | |||||| | ||||| ||||| |||||| ||||||||||||
-----------gtaagactttc-cttttcgtaacaggcatcattgtccaatcttgaaattttttactgct-ttcaagttccagcagtagtttccatttagcaatttttttgtaagctctaattggctccaatgaaag--att-tccatttatttttaa--------gcagATTGGACATCAGCAGCTTGCACTTCAGAACTTGTATTCGGCTGACAGAGGGGTGAAACATAAAAACCTATCTGTCCTTTCAACTATTGCTGTGCTTCCTT
















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|89178367|gb|CI391546.1|CI391546
EST:     TTTCAAGAAACAAAATTGCATTAACTTCCCTTTCGAGGCCAACAAGTGAG                         ATTGGACATCAGCAGCTCACATTTCAGTACCTCTATTCGTCTGATCGAGGA
genomic: TTTCAAGAAACAAAATTGCATTAACTTCCCTTTCGAGGCCAACAAGTGAGgtatgtactt ... tatcatgcagATTGGACATCAGCAGCTCACATTTCAGTACCTCTATTCGTCTGATCGAGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcgattggttcccacagaagtaatcgtcgatgtattgtcaatctatcatgcagATTGGACATCAGCAGCTCACATTTCAGTACCTCTATTCGTCTGATCGAGGAGTGAAATACAAAAACATGTCTGTTCTTTCGACTATTTCTGTGCTTCCTT
                   aagtaat  TA-rich tract