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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagttttaaacttttttatttttatatttctgatgtattcttttgtctaaatactttccag

Basic information

species Selaginella moellendorffii
transcript EFJ07343
intron # 9
splice site 5'
intron type U2

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|169057927|gb|FE465525.1|FE465525
EST:     GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAG                         GGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
genomic: GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
EST: gi|169113824|gb|FE515372.1|FE515372
EST:     AAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAG                         GGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
genomic: AAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
EST: gi|169036320|gb|FE444697.1|FE444697
EST:     GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAG                         GGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
genomic: GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
EST: gi|169024988|gb|FE434640.1|FE434640
EST:     GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAG                         GGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
genomic: GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
EST: gi|169113823|gb|FE515371.1|FE515371
EST:     ACTTGCAGGCAATGAAAGAC-ACCAGG                         GGAGAGTTGCAATACTTTATAGGTGTGCAAC-TGNATGGGAGTGAGTACA
genomic: ACTTGCAGGCAATGAAAGACAACCA-Ggcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTG-ATGGGAGTGAGTACA
EST: gi|169046223|gb|FE456382.1|FE456382
EST:     GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAG                         GGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
genomic: GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
EST: gi|169115294|gb|FE517010.1|FE517010
EST:     GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAG                         GGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
genomic: GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
EST: gi|169052748|gb|FE461165.1|FE461165
EST:     GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAG                         GGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA
genomic: GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATA

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: 27 (upstream exon), 35 (downstream exon)
Score: 12

GCAAACCATTCTGGAACCTCTTCCACTTGCAGGCAATGAAAGACAACCAGgcgagtttta ... tactttccagGGAGAGTTGCAATACTTTATAGGTGTGCAACTTGATGGGAGTGAGTACATAGAACCCATTCGTCAGAGACTCTCAGAGAGAACGGAACAAGAAGGTGCCA




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