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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcgagcaatgtcgtgcaaaaacttctgcccatgtttttcttccaatttttttttttttttttaatttctctcgctctccctctctctcttctttctctatttctctctctcactcgcttgaggatctggtggtcgtgcaaagcaaagtttcctaacttttgtgttacactgactgtctttgcttggcagGCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGTTACTCATGAAATACGCAGCGTGTGGATTTCGTATTGGTCCCAG

Basic information

species Selaginella moellendorffii
transcript EFJ33688
intron # 6
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|169022283|gb|FE431242.1|FE431242
EST:     AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAG                         GCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT
genomic: AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAGgtgagcgagc ... tgcttggcagGCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT
EST: gi|169054072|gb|FE462307.1|FE462307
EST:     AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAG                         GCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT
genomic: AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAGgtgagcgagc ... tgcttggcagGCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT
EST: gi|169109506|gb|FE510291.1|FE510291
EST:     AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAG                         GCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT
genomic: AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAGgtgagcgagc ... tgcttggcagGCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT
EST: gi|169054073|gb|FE462308.1|FE462308
EST:     AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAG                         GCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT
genomic: AACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAGgtgagcgagc ... tgcttggcagGCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGT

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: 28 (upstream exon), 30 (downstream exon)
Score: 4

GTGATGCTGGAAAAGGAGAACAATTTCGCACAACCTGGCGTGAGGTACAGATCATGGCCAGCTGACAGgtgagcgagc ... tgcttggcagGCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGTTACTCATGAAATACGCAGCGTGTGGATTTCGTATTGGTCCCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcaaagcaaagtttcctaacttttgtgttacactgactgtctttgcttggcagGCAAGAGAGGTTCATTGAGAATTGGGTGGACGCTCTATCCGATTCACGCGTTACTCATGAAATACGCAGCGTGTGGATTTCGTATTGGTCCCAG
                                         tctttgctt  CT-rich tract
                  taactttt  TA-rich tract