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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgttctcctttcctctcccctcgctctgcctccctctaaccgatttaagtggttgctgattggttggttgactgattgatctggtttgtttcgtgtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCAGTTCCTCGTCACCCGTAATG

Basic information

species Zea mays
transcript GRMZM5G818887_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G818887_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g41110.1 (Oryza sativa), 3'ss of exon 1
----gtgcgttctcctttcctctcccctcgctctgcctccctctaaccgatttaagtggttgctgattggttggttgactgattgatctggtttgtttcgtgtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCAGTTCCTCGTCACCCGTAATG
    |    |||||| || ||| |||  | || |         || ||||||   |||| |   | | ||  |  |||  |||     ||| | ||||| ||||    |||||| ||||||||||| |||||||||||||||||||||||  || | ||||| |||||||||||| | || |
gtaggcctcttctccgttgctccccctcctctgtagggtttggtacccgattgctgtgggtttgggtggggcgtctgatcgatctcggtgggt-gtttcctgtg----cagGGAGGCGGGCGATCCGAGCAAGAGGAAGCCGTATCTCCCTCCCGACAAGCAATTCCTCGTCACCAGGAACG

upper sequence: GRMZM5G818887_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g10290.2 (Oryza sativa), 3'ss of exon 1
gtgcgttctcctttcctctcccctcgctctgcctccctctaaccgatttaagtggttgctgattggttggttgactgattgatctggtttgtttcgtgtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCAGTTCCTCGTCACCCGTAATG
          || ||  |||||||| |  |||  |||   ||  | |     ||| |   | || |   |  | || || ||||          | |||||    ||||| ||||||||||| |||||||||||||||||||||||  |  | ||||| || ||||||||| | || |
------gtagctctctcctcccctc-cgttgctccccctcaattgctgggtttgggtttgggtttgggtggcgtctcatcgatcc--------ccctgtgt----agGGAGGCGGGCGATCCGAGCAAGAGGAAGCCGTATCTCCCACCTGACAAGCAATTTCTCGTCACCAGGAACG
















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|211324982|gb|FL012751.1|FL012751
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCA
EST: gi|211329322|gb|FL012784.1|FL012784
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|61236719|gb|DN586461.1|DN586461
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|148960724|gb|EE011368.2|EE011368
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|211324984|gb|FL012753.1|FL012753
EST:     TTCAT-CTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGANGAAGCCGTATCTCCCCGCCAA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAA
EST: gi|76013821|gb|DT940991.1|DT940991
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|78091451|gb|DV519825.1|DV519825
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|67010369|gb|CO439118.1|CO439118
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|149045355|gb|EE047779.2|EE047779
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|86468327|gb|DY234697.1|DY234697
EST:     TTCTTTCTCGCCGGCGACAACCTCGTCCCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|87156323|gb|DY401112.1|DY401112
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|71313249|gb|DR793148.1|DR793148
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|211324976|gb|FL012745.1|FL012745
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|76016277|gb|DT943447.1|DT943447
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
EST: gi|78113031|gb|DV531425.1|DV531425
EST:     TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTG                         GGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA
genomic: TTCATTCTCGCCGGCGACAACCTCGTCGCCAAGTGCCCCACCTGGTCCTGgtgcgttctc ... gtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttgctgattggttggttgactgattgatctggtttgtttcgtgtgttcacagGGAAGCGGGCGATCCAAGCAAGAGGAAGCCGTATCTCCCCGCCAATAAGCAGTTCCTCGTCACCCGTAATG
                                   tttgttt  TA-rich tract