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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgaaggatatgttctggttctattattacctcatactgttgtattcacttgtaacttccctctatgtcccgtttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG

Basic information

species Zea mays
transcript GRMZM2G047093_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047093_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g43030.1 (Oryza sativa), 3'ss of exon 2
gtatgttgaaggatatgttctggttctatt---attacctca--tactgt--tgtattcacttgtaacttcc---ctctatgtcccgtttca-tgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG
|||||  ||| ||||| ||   ||||  ||    |||| | |  | |||   | |||    | || || | |   |  | ||||   || |  |||||||||  ||||||||||||||||||||||||| |||||||| || ||||||||||| || || |||||||| || ||  |||||
gtatgcagaaagatatatttaagttcctttcgtgttactttacttcctgcaatatatatgttagtcacattcacacattgtgtcttattcccctgtagAAACCTTATCAATGAAAGGTTTGACGCTAAATTGCATGGATCGGAAATCTGAAGCATATGAACTTGTTCGCCGTGGATTGAAG
















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|211146407|gb|FL424906.1|FL424906
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211081604|gb|FL369109.1|FL369109
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|18384963|gb|BM418162.1|BM418162
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAG-TTCCAGAGCATGGTG                         AAACACTATCAATGAAAGG-TTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211506963|gb|FL409463.1|FL409463
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211336560|gb|FL394810.1|FL394810
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTNACGGCTAAACCTGCATGGACCGAAAATC
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACG-CTAAAC-TGCATGGACCGAAAATC
EST: gi|211005424|gb|FL371737.1|FL371737
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211307138|gb|FL392844.1|FL392844
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211245310|gb|FL400476.1|FL400476
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|18383999|gb|BM417199.1|BM417199
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211087316|gb|FL378414.1|FL378414
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211351636|gb|FL428918.1|FL428918
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211202659|gb|FL427925.1|FL427925
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGNG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211298871|gb|FL392442.1|FL392442
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211434149|gb|FL401078.1|FL401078
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211351633|gb|FL428915.1|FL428915
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211210031|gb|FL411368.1|FL411368
EST:     AGGGCTTAAGGNTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211144252|gb|FL374571.1|FL374571
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGNG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|76013182|gb|DT940352.1|DT940352
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211039363|gb|FL382061.1|FL382061
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211065683|gb|FL394004.1|FL394004
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211204324|gb|FL385639.1|FL385639
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211156640|gb|FL401280.1|FL401280
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211166060|gb|FL381601.1|FL381601
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211303363|gb|FL404498.1|FL404498
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGNTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGNTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211517987|gb|FL372292.1|FL372292
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211112730|gb|FL370881.1|FL370881
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211461654|gb|FL410743.1|FL410743
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211506957|gb|FL409457.1|FL409457
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211339025|gb|FL403590.1|FL403590
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211184480|gb|FL377621.1|FL377621
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211095044|gb|FL395908.1|FL395908
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211298413|gb|FL370612.1|FL370612
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211324007|gb|FL416239.1|FL416239
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211037251|gb|FL404714.1|FL404714
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211493470|gb|FL389418.1|FL389418
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211223503|gb|FL389609.1|FL389609
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211040054|gb|FL419095.1|FL419095
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211063544|gb|FL410481.1|FL410481
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211002643|gb|FL371723.1|FL371723
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211366005|gb|FL393803.1|FL393803
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211169425|gb|FL381638.1|FL381638
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG
EST: gi|211154940|gb|FL392737.1|FL392737
EST:     AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTG                         AAACANTATCNATGAAAGGTTTGACGCNAAACTGCATGGACCGAAAATCTG
genomic: AGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTG

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), 49 (downstream exon)
Score: 314

AAATCCTACGAGACTAAGCAATATAAGAAAGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 303

AAATCCTACGAGACTAAGCAATATAAGAAAGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 186

AAATCCTACGAGACTAAGCAATATAAGAAAGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 285

AAATCCTACGAGACTAAGCAATATAAGAAAGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGTTTCCAGAGCATGGTGgtatgttgaa ... tttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacctcatactgttgtattcacttgtaacttccctctatgtcccgtttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG
                      ttgtaac  putative branch site (score: 285)
                            cttccctctatgtccc  CT-rich tract
            ttgtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttgaaggatatgttctggttctattattacctcatactgttgtattcacttgtaacttccctctatgtcccgtttcatgtagAAACACTATCAATGAAAGGTTTGACGCTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG