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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtactcttttttgccctttatctattctcacctcttaattagagcctgagcatagtactcattactcaatagcatttgaagaaacttctgctcatttatacatttgtgaacaatattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCTCGTGTGACAAACGAGGAAGTCCAAAAGGCT

Basic information

species Oryza sativa
transcript LOC_Os12g42884.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g42884.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G149751_T06 (Zea mays), 3'ss of exon 5
gtatggtactcttttttgccctttatctattctcacctcttaattagagcctgagcatagtactcattactcaatagcatttgaagaaacttctgctcatttatacatttgtgaacaatat-tgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCTCGTGTGACAAACGAGGAAGTCCAAAAGGCT
     |||    | | |     | ||   ||      |||||| |||  |||  || |     |  |  ||  ||| |||||        |  | |  | |||| ||||  || | | |   ||||||||||||||| ||||||||  |||||||||||||||| ||||  || ||||| |||||||| || || |||||||| ||||||
-----gtatggctgtgtagttctcat---tttctgattcttaactagt-cctttgcgtttcttttttcccttcata-cattttc---ccttcatacaaacttattcattcttgcaaatttcatgtacagGCTTACTTCGCAGCAAATGCTGCTGCTCAGGCCTCGAGGAAATCCTCACCCCGTGTGACCAATGAAGAAGTCCAGAAGGCT
















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|300215517|gb|HO088143.1|HO088143
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACGCTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|218492493|gb|FG951515.1|FG951515
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|300216253|gb|HO088038.1|HO088038
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACGCTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|29620902|gb|CB625913.1|CB625913
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACGCTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|29637650|gb|CB642659.1|CB642659
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|29675799|gb|CB672074.1|CB672074
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|58613186|gb|CK040898.1|CK040898
EST:     GGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: GGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|218483058|gb|FG951439.1|FG951439
EST:     GCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: GCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|428283|gb|D24431.1|D24431
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|29615679|gb|CB620691.1|CB620691
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACGCTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|29635138|gb|CB640147.1|CB640147
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAAGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|4881161|gb|AU065460.1|AU065460
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCANGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
EST: gi|33800724|gb|CF326232.1|CF326232
EST:     TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAG                         GCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT
genomic: TGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACAGAAGGATGAGgtatggtact ... tattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagcatttgaagaaacttctgctcatttatacatttgtgaacaatattgtacagGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCACCTCGTGTGACAAACGAGGAAGTCCAAAAGGCT
                       tcatttatacattt  TA-rich tract