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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGATGCCAGTGTTTGATATGCTGGAAACCGTTCTGGTCAAGAAATTTCACTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttggagattttttattcatccagatcactcaacactggaacttttatcttggcag

Basic information

species Selaginella moellendorffii
transcript EFJ10950
intron # 5
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|169110470|gb|FE514153.1|FE514153
EST:     CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTCGTTGGGATGACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTTCGTTGGGATGACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169113017|gb|FE514873.1|FE514873
EST:     CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTCGT-GGGATGACTTTT
genomic: CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTT-CGTTGGGATGACTTTT
EST: gi|169076334|gb|FE485780.1|FE485780
EST:     CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTCGTTGGGATGACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTTCGTTGGGATGACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169068980|gb|FE477711.1|FE477711
EST:     CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTCGTTGGGATGACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTTCGTTGGGATGACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169068981|gb|FE477712.1|FE477712
EST:     CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTCGTTGGGATGACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTTCGTTGGGATGACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169113016|gb|FE514872.1|FE514872
EST:     CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTCGTTGGGATGACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTTCGTTGGGATGACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169095754|gb|FE498367.1|FE498367
EST:     CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTCGTTGGGATGACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTTCGTTGGGATGACTTTTCCTTTTTTTGGAGACTTGCTGG

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: 34 (upstream exon), 34 (downstream exon)
Score: 23

GCGATGCCAGTGTTTGATATGCTGGAAACCGTTCTGGTCAAGAAATTTCACTTTCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... atcttggcagCTTTCACTGCCTTCGTTGGGATGACTTTTCCTTTTTTTGGAGACTTGCTGGGTTTTTTCGGAGGTTTTGCGTTTGCTCCCACGACTTACTTT




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