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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaacaaacaacagaagcaaacagcttattgccatctcactgaaacttcttcagattcagctaggaacaatagctgaacatccatccatctctgaatctgaatgtctttgacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCAAG

Basic information

species Oryza sativa
transcript LOC_Os06g36560.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36560.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G126900_T02 (Zea mays), 3'ss of exon 4
gtaagaaacaaacaacagaagcaaacagcttattgccatctcactgaaacttcttcagattcagctaggaacaatagctgaacatccatccatctctgaatctgaatgtctttgacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCAAG
                                  |  | |     ||||  |   | ||| ||       | |||| || || ||   |||  ||||||| |    |||     | |||||||||||||||||||||||||||||||||| |||||| ||||||||||||||||||
----------------------------------gtaagcaaggggaaatcttggc-gatgcaat-----ataata-ctcaaaat---tcctcctctgaaacc---tgt-----agctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCAAG
















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|29644701|gb|CB649708.1|CB649708
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29679307|gb|CB675582.1|CB675582
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29660840|gb|CB657115.1|CB657115
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|58587863|gb|CF986171.1|CF986171
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29661872|gb|CB658147.1|CB658147
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29656267|gb|CB652542.1|CB652542
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29676120|gb|CB672395.1|CB672395
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29656245|gb|CB652520.1|CB652520
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29680345|gb|CB676620.1|CB676620
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29657369|gb|CB653644.1|CB653644
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29642558|gb|CB647565.1|CB647565
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29669886|gb|CB666161.1|CB666161
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29639892|gb|CB644901.1|CB644901
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|87031847|gb|CI272548.1|CI272548
EST:     AGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: AGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|66920340|gb|CX107188.1|CX107188
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29658930|gb|CB655205.1|CB655205
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|87009635|gb|CI309156.1|CI309156
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
EST: gi|29659887|gb|CB656162.1|CB656162
EST:     GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA
genomic: GGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaaca ... gacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacaatagctgaacatccatccatctctgaatctgaatgtctttgacctttcagGTGACACCTTCCCCGTCGGCTGCGCATTCGACGAATGCAACGTCCACTTCAAG
                                         ctttgac  putative branch site (score: 4)
                                               cctttc  CT-rich tract