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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattgttactgtactaacattggaaatataatccaatggcatcatatccttgcgaactctaaatgtactaaattcttcttccttttgcccacatttacagGACCAAGTCTGTCTTCATATAAAGGTTCTTACGCAGGTTCATTTGAATCTTCGTGTGATTCAG

Basic information

species Oryza sativa
transcript LOC_Os01g22390.3
intron # 8
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 8
lower sequence: GRMZM2G118641_T01 (Zea mays), 3'ss of exon 7
--aattgttactgtactaa-cattggaaatataatccaatggcatcatatccttgcgaactctaaatgtactaaattcttcttccttttgc--ccacatttacagGACCAAGTCTGTCTTCATATAAAGGTTCTTACGCAGGTTCATTTGAATCTTCGTGTGATTCAG
   |   ||    || ||  || | |||||    |  | || || | |  |  | | || |    ||||| ||| |   || |  | || |  |  ||| | |||||||||| ||||||| || |||| ||||||| |||| ||| |||| |||||||||||||||| 
gtcaaaatttggatattagtcaattgaaattc--tttagtgccaacgtccctcttctaattt---atgtattaactatctcattgtgtttctactgcatctgcagGACCAAGCCTGTCTTTATGTAAAAGTTCTTATGCAGATTCCTTTGGATCTTCGTGTGATTCAA
















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|58665170|gb|CK053856.1|CK053856
EST:     GCCTTGTATCAATTCTACCTGTCAAAACAATTCTTAGAGAGCTTCTTCAG                         GACCAAGTCTGTCTTCATATAAAGGTTCTTACGCAGGTTCATTTGAATCTT
genomic: GCCTTGTATCAATTCTACCTGTCAAAACAATTCTTAGAGAGCTTCTTCAGgtattttggt ... acatttacagGACCAAGTCTGTCTTCATATAAAGGTTCTTACGCAGGTTCATTTGAATCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccttgcgaactctaaatgtactaaattcttcttccttttgcccacatttacagGACCAAGTCTGTCTTCATATAAAGGTTCTTACGCAGGTTCATTTGAATCTTCGTGTGATTCAG
                    tactaaa  putative branch site (score: 1)
                           ttcttcttccttttgc  CT-rich tract
              taaatgtactaaatt  TA-rich tract