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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaaaatttcttaatatttctcttgtgtttatgccgctgcctgtttatttagttcatttcttcaagttccggaatattgacaaactgacaatcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG

Basic information

species Zea mays
transcript GRMZM2G042604_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042604_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g36710.1 (Oryza sativa), 3'ss of exon 2
--caaaaatttcttaatatttctcttgtgtt-tatgccgctgcctgtttatttagttcatttct-tcaagttccggaatattgacaaactgaca-atcctgt-tagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG
             |   | | | || || |  |||   | |||   ||||||||| |  ||| | |||||      | || |||| |||||||| |   ||   |||||||||| ||||| || |||||||||||| |||||||||||||| ||||||| ||||| ||  ||||||||||| |||| || || || || ||||| |
tgtctttggcctatgccactacgctagtatggtatttggttgc--atttatttagattgtttttgtcaagc----aattactgacgaactgacataaattgcacagGTTGTTGAGAGTGGCGGAAAGAACATCGAGATTGCAGTGATGACACAGAAGGATGGTCTTCGCCAACTCGAGGAGGCTGAAATCGACGAATATGTTGCTG

upper sequence: GRMZM2G042604_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G23580.1 (Glycine max), 3'ss of exon 2
caaaaatttct-taatatttctcttgtgtttatgcc-gctgcctgtttatttagttcatttcttcaagt-----tccggaatattgacaaactgacaatcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG
     ||| || |   ||   |   || ||| ||   |||    | || ||   | | | ||  || |      |     ||| |       ||||  |    |||||||||||| ||||| ||||||||||| || ||||| |||||||| ||| || | ||||| ||  |||| |||||  | || |||||||    |||||| |
-----attcctgttgcataattacagtatttctgtttgctaatagcttgtt--atgcgtctcaacaggaatatgtttaatatacttcacttttgactttttaattagGTTGTTGAGAGTGGAGGGAAGAACATAGAAGTTGCGGTGATGACTAAGGAGCAGGGTCTGCGTCAACTGGAGGAAGCCGAAATTGATGCCATCGTTGCTG
















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|91873917|gb|EB403874.1|EB403874
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|148938800|gb|EC883141.2|EC883141
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|89755919|gb|DY686155.1|DY686155
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|74234850|gb|DT642764.1|DT642764
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|149075741|gb|EE164290.2|EE164290
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGGTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|149041329|gb|EE046966.2|EE046966
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|149004904|gb|EE039415.2|EE039415
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|32850325|gb|CD990006.1|CD990006
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|149041328|gb|EE046965.2|EE046965
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|5030508|gb|AI714702.1|AI714702
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|76019011|gb|DT946181.1|DT946181
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAAGAA
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAA-GAA
EST: gi|18163148|gb|BM332987.1|BM332987
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|88758103|gb|DY542244.1|DY542244
EST:     AGACCTCCCGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACAT
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACAT
EST: gi|28982723|gb|BQ538252.2|BQ538252
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|71436689|gb|DR817739.1|DR817739
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|78090840|gb|DV519214.1|DV519214
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAAGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|101387809|gb|EB815919.1|EB815919
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|86473395|gb|DY239765.1|DY239765
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|91050839|gb|EB161257.1|EB161257
EST:     CTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: CTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|18179990|gb|BM381200.1|BM381200
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|22521101|gb|BU079912.1|BU079912
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTTTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|211039959|gb|FL188149.1|FL188149
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|101387811|gb|EB815920.1|EB815920
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|71758041|gb|DR955978.1|DR955978
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|14203040|gb|BG836717.1|BG836717
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGCGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|5499193|gb|AI855060.1|AI855060
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|71450302|gb|DR831352.1|DR831352
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|14243852|gb|BG841506.2|BG841506
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|211219952|gb|FL188164.1|FL188164
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|78089239|gb|DV517613.1|DV517613
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|76016220|gb|DT943390.1|DT943390
EST:     CTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: CTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|74240614|gb|DT648528.1|DT648528
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|76280462|gb|DV020030.1|DV020030
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|93284340|gb|EB676604.1|EB676604
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|211386277|gb|FL454555.1|FL454555
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|78112175|gb|DV530571.1|DV530571
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCCCTTCTAGAG                         GTTGTTGAAAGTGGTGGGAA
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAA
EST: gi|71426415|gb|DR807465.1|DR807465
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|14244582|gb|BG840710.2|BG840710
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|71426416|gb|DR807466.1|DR807466
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|32938210|gb|CF043029.1|CF043029
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|78090841|gb|DV519215.1|DV519215
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAAGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|78112174|gb|DV530570.1|DV530570
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|78121862|gb|DV540246.1|DV540246
EST:     CTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: CTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|74234849|gb|DT642763.1|DT642763
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|91873916|gb|EB403873.1|EB403873
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|31910233|gb|CD651321.1|CD651321
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|149004903|gb|EE039414.2|EE039414
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|60342419|gb|DN209392.1|DN209392
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|78089238|gb|DV517612.1|DV517612
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|31612384|gb|CD569006.1|CD569006
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|86470732|gb|DY237102.1|DY237102
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|14245353|gb|BG873935.1|BG873935
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|148938801|gb|EC883142.2|EC883142
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
EST: gi|71439339|gb|DR820389.1|DR820389
EST:     AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAG                         GTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG
genomic: AGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAG

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: 46 (upstream exon), 49 (downstream exon)
Score: 365

GGGAAGGAACTCCAACTCTATGCGTGAGTTCCTGGAGAAGAACTACAAGGAGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 274

GGGAAGGAACTCCAACTCTATGCGTGAGTTCCTGGAGAAGAACTACAAGGAGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 296

GGGAAGGAACTCCAACTCTATGCGTGAGTTCCTGGAGAAGAACTACAAGGAGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 161

GGGAAGGAACTCCAACTCTATGCGTGAGTTCCTGGAGAAGAACTACAAGGAGACCTCCGGCAAGGAGACCATCAAACTTGCTATCCGTGCACTTCTAGAGgtatatcgta ... atcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttagttcatttcttcaagttccggaatattgacaaactgacaatcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG
                                     aactgac  putative branch site (score: 161)
                                              tcctgtt  putative PPT
                           aatattga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaaaatttcttaatatttctcttgtgtttatgccgctgcctgtttatttagttcatttcttcaagttccggaatattgacaaactgacaatcctgttagGTTGTTGAAAGTGGTGGGAAGAACATCGAGGTTGCAGTGATGACAAAGAAGGACGGTCTCCGGGAACTCGAGGAGTCTGAGATTGATGAGTACGTTGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - -tgtgttt
- - - - - - - - - - - - - - - - gccgctg