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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttggagattttttattcatccagatcattcaacactggaactttgtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGGGCTTTTTCGGAGGTTTTGCGTTTGCTCCCACGACTTACTTT

Basic information

species Selaginella moellendorffii
transcript EFJ25874
intron # 5
splice site 3'
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|169047534|gb|FE455118.1|FE455118
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169109258|gb|FE512825.1|FE512825
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169107383|gb|FE509123.1|FE509123
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169100621|gb|FE502133.1|FE502133
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169045221|gb|FE451454.1|FE451454
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169053549|gb|FE463318.1|FE463318
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169111166|gb|FE511352.1|FE511352
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169083875|gb|FE492787.1|FE492787
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169024838|gb|FE435504.1|FE435504
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169100468|gb|FE502682.1|FE502682
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTGTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169061780|gb|FE470698.1|FE470698
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG
EST: gi|169072770|gb|FE484348.1|FE484348
EST:     CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTG                         CTTTCACTGCCTTTATTGGGATAACTTTTCCNNNNNNNGGAGACTTGCTGG
genomic: CTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGG

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), 21 (downstream exon)
Score: 12

GCGATGCCAGTGTTTGATATGCTGGAAACCGTTCTGGTCAAGAAGTTTCACTTCCCTCCAGGTGTGATTCTTCGTCTCGTCGCTCGATCACTCTATGTTGgtaagttttg ... gtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGGGCTTTTTCGGAGGTTTTGCGTTTGCTCCCACGACTTACTTT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggagattttttattcatccagatcattcaacactggaactttgtcttggcagCTTTCACTGCCTTTATTGGGATAACTTTTCCTTTTTTTGGAGACTTGCTGGGCTTTTTCGGAGGTTTTGCGTTTGCTCCCACGACTTACTTT
                                         ctttgtctt  CT-rich tract
     agattttttattcat  TA-rich tract