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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctttcttttcacaacagattactttctcatatagaaacctttaattaatcctttcgtttcttctcatctgttccctgcattcgatttggttgcaaactaatttaactctttcattccagGTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG

Basic information

species Oryza sativa
transcript LOC_Os12g44000.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g44000.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G018447_T01 (Zea mays), 3'ss of exon 3
gtgagctttcttttcacaacagattactttctcatatagaaacctttaattaatcctttcgtttcttctcatctgttccctgcattcgatttggttgcaaactaatttaactctttca-ttccagGTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG
    |  |  |||||   ||| |    |  |  || |||  |  |     || || |    ||||   ||||   |||  |  |||  ||   | | || |   ||| |  |||||   |||||||||||||||||||| || ||||| |||||||||||||| |||||||||||||||||||| ||||
----gtctggttttctggacaaa--gatcgcatatttagtcaattacgtctactcatcctttttcccttcat---ttcatttgattgaat---gatacataaccattcacgtcttttgcttccagGTCATTTTTCTCAATCCAGCGCCAATGCATCCACACATCTACAGCAACGGGCACATCTGCTTAG

upper sequence: LOC_Os12g44000.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G007381_T01 (Zea mays), 3'ss of exon 3
gtgagctttcttttcacaacagattactttctcatatagaaacctttaattaatcctttcgtttcttctcatctgttccctgcattcgatttggttgcaaactaatttaactctttcattccagGTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG
    |  |  ||||| | ||| |    || |          ||||||| |  ||  ||   | ||||||||| | |||  | | ||| ||||  ||      | |||  |||| |   |||||||||||||||||||| || ||||| ||||||||||||||||||||||||||||||||||| ||||
----gtctggttttctcgacaaa--gattgc----------acctttagtcgattgtt---tgtcttctcatttcttctgttccttccatttcatt------tgattggactcatcttttccagGTCATTTTTCTCAATCCAGCGCCAATGCATCCACACATTTACAGCAACGGGCACATCTGCTTAG
















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|88237642|gb|CI237491.1|CI237491
EST:     ACCAGCTGCAGGTCGACTTGCCTGAGCATTATCCCATGGAGGCGCCTCAG                         GTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGG
genomic: ACCAGCTGCAGGTCGACTTCCCTGAGCATTATCCCATGGAGGCGCCTCAGgtgagctttc ... ttcattccagGTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catctgttccctgcattcgatttggttgcaaactaatttaactctttcattccagGTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG
                                         ctctttcattcc  CT-rich tract
                             aaactaatttaact  TA-rich tract