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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctattctttgatatgtgatattgtgattagactgaaacatacataaattgcgaggttaaaggaatacaaaatggtgaatgctattactatctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG

Basic information

species Zea mays
transcript GRMZM2G079196_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 3'ss of exon 2
ctattctttgatatgtgatattgtgattagactgaaacatacata-aattgcgaggttaaaggaatacaaaatggtga-atgctattact-----atctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG
       |  |||  |  | ||    ||    |   ||| |  || || ||| |  | |     || |    |  ||| |||  ||| ||     |||||  | ||||| |||| ||||||||||| ||||||||||||||||| || |||||||| ||  |||||||||||||||||||||||||
-------tgcataaattgtgtttgtcttttgttaccacacaattacaaatgctacttcatgtatatgctgctttatgatatgacattgctcaaatatcttattacagGTATGGTTGAGACAGACCCTGAGGGTGCACTTGCTGGCTTCGATCAAGTAGTACGTATGGAGCCTGAAAAGGCTGAATG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 3'ss of exon 2
ctattctttgatatgtgatattgtgat-tagactgaaacatacataaattgcgaggtt-aaaggaatacaaaatggtgaatgctattactatctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG
  |||  |  ||    | |||||   | | |||| |   ||   |   |||| |  || ||| ||||              |||  |  |   ||    |||||||||| ||||| || ||||| |||||||||||||| |||| | |||| ||  | ||||| || || ||||| || ||
-aatttgtaaattccagttattgccttgtggacttatggatttttgttttgcaaatttcaaatgaatggttttcctctggagctcat-ttcctttgtcacagGTTTGGTTGAGACTGATCCAGAAGGTGCACTTGCTGGCTTTGCTGAAGTAGTTCGCATGGAACCAGAGAAGGCAGAGTG
















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|211294331|gb|FL267095.1|FL267095
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGG-TGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290046|gb|FL267062.1|FL267062
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292183|gb|FL267075.1|FL267075
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211287913|gb|FL267057.1|FL267057
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294335|gb|FL267099.1|FL267099
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294328|gb|FL267092.1|FL267092
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294324|gb|FL267088.1|FL267088
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAA
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAA
EST: gi|211287904|gb|FL267048.1|FL267048
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294325|gb|FL267089.1|FL267089
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292186|gb|FL267078.1|FL267078
EST:     GCCGGA-GAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGA-GGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292189|gb|FL267081.1|FL267081
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292182|gb|FL267074.1|FL267074
EST:     GCCGGA-GAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGA-GGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292185|gb|FL267077.1|FL267077
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294338|gb|FL267102.1|FL267102
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211287909|gb|FL267053.1|FL267053
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|76015005|gb|DT942175.1|DT942175
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290042|gb|FL267058.1|FL267058
EST:     GCCGGAGGAGCAGGATGTCCACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGCTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|31353952|gb|CD438309.1|CD438309
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292194|gb|FL267086.1|FL267086
EST:     GCCGGA-GAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGA-GGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292190|gb|FL267082.1|FL267082
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290053|gb|FL267069.1|FL267069
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292191|gb|FL267083.1|FL267083
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290052|gb|FL267068.1|FL267068
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294337|gb|FL267101.1|FL267101
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294333|gb|FL267097.1|FL267097
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211287903|gb|FL267047.1|FL267047
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GNTTGGTCGAGACNGACCCAGAGGGTGCACTTGCTGGTTTTGA
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGA
EST: gi|193502120|gb|AM937931.1|AM937931
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294334|gb|FL267098.1|FL267098
EST:     GCCGGA-GAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGWCGAGACAGACCCAGA-GGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211287905|gb|FL267049.1|FL267049
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290048|gb|FL267064.1|FL267064
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211287908|gb|FL267052.1|FL267052
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294327|gb|FL267091.1|FL267091
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290045|gb|FL267061.1|FL267061
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|32932790|gb|CF037602.1|CF037602
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|32931205|gb|CF036017.1|CF036017
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGGCCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290054|gb|FL267070.1|FL267070
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292188|gb|FL267080.1|FL267080
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCKGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211287910|gb|FL267054.1|FL267054
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292193|gb|FL267085.1|FL267085
EST:     GCCGGA-GAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGA-GGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211292192|gb|FL267084.1|FL267084
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294329|gb|FL267093.1|FL267093
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211294326|gb|FL267090.1|FL267090
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290050|gb|FL267066.1|FL267066
EST:     GCCGGA-GAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGA-GGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|14883495|gb|BI273378.1|BI273378
EST:     GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG
EST: gi|211290043|gb|FL267059.1|FL267059
EST:     GCCGGA-GAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG                         GTTTGGTCGAGACAGACCCAGA-GGTGCACTTGCTGGTTTTGATCAAGTGG
genomic: GCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 160

ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 206

ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 198

ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 159

ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAGgttggctctt ... ctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgcgaggttaaaggaatacaaaatggtgaatgctattactatctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG
                                         ctatctttct  CT-rich tract
                 aatacaaaat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctattctttgatatgtgatattgtgattagactgaaacatacataaattgcgaggttaaaggaatacaaaatggtgaatgctattactatctttctgcagGTTTGGTCGAGACAGACCCAGAGGGTGCACTTGCTGGTTTTGATCAAGTGGTCAGTATGGAGCCTGAAAAGGCTGAATG

- - - - - - - - - - -tgtgatt
- - - - - - - - - - - - - - - - - - acataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatgc