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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcttttgtttttatttccgagggaatatgaattgacgagttatttatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACGCTGCCGCTCAGGCAGGAAAAGCAGCAGATGTTTTCTACTGCCTCAAGCT

Basic information

species Selaginella moellendorffii
transcript EFJ30498
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ30498 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GRMZM5G840582_T03 (Zea mays), 3'ss of exon 11
-----------gtttgcttttgtttttatttccgagggaatatgaattg-----acgagttatttatttac--cagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACGCTGCCGCTCAGGCAGGAAAAGCAGCAGATGTTTTCTACTGCCTCAAGCT
           | || || ||| |||     |  |  || | ||  ||        || |  ||   || |  |||| || ||||||||||| ||||  ||  ||||  ||     ||| || || || ||       || || ||||||||||| ||||||||||||||||||||
gtaagcatcaagatttctgttggttt-gcagcgaatagagtgtggtttatttttgtgactggttgtgttgctgcagGAGCTATGTACTCTTTCCCCCAAATACAGCTGCCAGCAAGAGCCATCGAGGCGGCAAAGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCT
















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|169058050|gb|FE463958.1|FE463958
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169067534|gb|FE475263.1|FE475263
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169106825|gb|FE508773.1|FE508773
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169066459|gb|FE474682.1|FE474682
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169065717|gb|FE476205.1|FE476205
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169045643|gb|FE452604.1|FE452604
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169046057|gb|FE453954.1|FE453954
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169035664|gb|FE445434.1|FE445434
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169057472|gb|FE465776.1|FE465776
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169112479|gb|FE512756.1|FE512756
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169088621|gb|FE495979.1|FE495979
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169056996|gb|FE466223.1|FE466223
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169042322|gb|FE452870.1|FE452870
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169036857|gb|FE444974.1|FE444974
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169066183|gb|FE475683.1|FE475683
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169073090|gb|FE484143.1|FE484143
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169019369|gb|FE427679.1|FE427679
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169088622|gb|FE495980.1|FE495980
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169067159|gb|FE474927.1|FE474927
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169044151|gb|FE452153.1|FE452153
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169029047|gb|FE437550.1|FE437550
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169035271|gb|FE443741.1|FE443741
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169078707|gb|FE486515.1|FE486515
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169059960|gb|FE467322.1|FE467322
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169020173|gb|FE428235.1|FE428235
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169106600|gb|FE504635.1|FE504635
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169067160|gb|FE474928.1|FE474928
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169066245|gb|FE475199.1|FE475199
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169067533|gb|FE475262.1|FE475262
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169106824|gb|FE508772.1|FE508772
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169029665|gb|FE437336.1|FE437336
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169097503|gb|FE497945.1|FE497945
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169104416|gb|FE503752.1|FE503752
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169111757|gb|FE511956.1|FE511956
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169067096|gb|FE474474.1|FE474474
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169069054|gb|FE477746.1|FE477746
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169037822|gb|FE442533.1|FE442533
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169054114|gb|FE462349.1|FE462349
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169044380|gb|FE453318.1|FE453318
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169100332|gb|FE501129.1|FE501129
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
EST: gi|169066182|gb|FE475682.1|FE475682
EST:     GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAG                         GTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG
genomic: GACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACG

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 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 34 (downstream exon)
Score: 73

CAAAGCGATTATAGAATCGATGCGAAGGAGGGCTCACATTATGACTGATGGATTCAACAAGTGCGAGGACGTAGTTTGTAACTTCACAGAAGgtttgctttt ... tatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACGCTGCCGCTCAGGCAGGAAAAGCAGCAGATGTTTTCTACTGCCTCAAGCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttttgtttttatttccgagggaatatgaattgacgagttatttatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACGCTGCCGCTCAGGCAGGAAAAGCAGCAGATGTTTTCTACTGCCTCAAGCT
                              aattgac  putative branch site (score: 73)
                                           tttattt  putative PPT
                                      agttatttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgcttttgtttttatttccgagggaatatgaattgacgagttatttatttaccagGTGCCATGTACTCTTTTCCCCGGATCAAGCTTTCAAAGGCAGCTATGGACGCTGCCGCTCAGGCAGGAAAAGCAGCAGATGTTTTCTACTGCCTCAAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT