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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCGAACTAGTGGCGAGAAGCTGGGACTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagtttttacatagtggtttcttatatatgggattaaaaagcctttttgtgatggcag

Basic information

species Selaginella moellendorffii
transcript EFJ07343
intron # 13
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:     CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAG                         TGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGC-ATGAAGAG
genomic: CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
EST: gi|169113824|gb|FE515372.1|FE515372
EST:     CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAG                         TGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
genomic: CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
EST: gi|169113823|gb|FE515371.1|FE515371
EST:     CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAG                         TGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
genomic: CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
EST: gi|169046223|gb|FE456382.1|FE456382
EST:     CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAG                         TGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
genomic: CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
EST: gi|169033081|gb|FE441413.1|FE441413
EST:     CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAG                         TGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
genomic: CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
EST: gi|169115294|gb|FE517010.1|FE517010
EST:     CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAG                         TGTACATTTAGTAGAG
genomic: CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAG
EST: gi|169024981|gb|FE433814.1|FE433814
EST:     CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAG                         TGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG
genomic: CTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAG

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: 32 (upstream exon), 35 (downstream exon)
Score: 26

ATTCGAACTAGTGGCGAGAAGCTGGGACTCCACCATTTTCGGCCTGTCAAATCTCTTGGGTTTGGTGACACAGGAAGgtgagttttt ... gtgatggcagTGTACATTTAGTAGAGTTGAAAGGTTCCAGCCAGTATTTTGCCATGAAGAGCATGGACAAGAGCGTGATGATAAACAGGAACAAG




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