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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcgtatatcagagcgtgatttgctccaaaagaactcaattgtaaattttgtctccttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAGGAAATTGACGAGCACTTGACAGCGATCAGCGAGCGAGACTAGACTCTGA

Basic information

species Selaginella moellendorffii
transcript EFJ09222
intron # 8
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|169064643|gb|FE471374.1|FE471374
EST:     CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAG                         GTTGGCATTGTGCGAGCCACCGATCCANAGTTCCAAATCATGTCCACGGA
genomic: CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAGgtagcgtata ... cttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGA
EST: gi|70670234|gb|DN838811.1|DN838811
EST:     CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAG                         GTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG
genomic: CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAGgtagcgtata ... cttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG
EST: gi|169048167|gb|FE455439.1|FE455439
EST:     CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAG                         GTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG
genomic: CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAGgtagcgtata ... cttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG
EST: gi|169113459|gb|FE514994.1|FE514994
EST:     CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAG                         GTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG
genomic: CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAGgtagcgtata ... cttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG
EST: gi|169113460|gb|FE514995.1|FE514995
EST:     CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAG                         GTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCCACGGA
genomic: CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAGgtagcgtata ... cttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCC-ACGGA
EST: gi|169064642|gb|FE471373.1|FE471373
EST:     CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAG                         GTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG
genomic: CGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAGgtagcgtata ... cttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAG

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), 32 (downstream exon)
Score: 33

ACGGCGATCTCGGCTCTCCAATCCATTCTTTTGGAAGATTTCAAGGCCACGGAGATCGAGgtagcgtata ... cttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAGGAAATTGACGAGCACTTGACAGCGATCAGCGAGCGAGACTAGACTCTGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagcgtgatttgctccaaaagaactcaattgtaaattttgtctccttctcgcagGTTGGCATTGTGCGAGCCACCGATCCAAAGTTCCAAATCATGTCCACGGAGGAAATTGACGAGCACTTGACAGCGATCAGCGAGCGAGACTAGACTCTGA
                                    ttttgtctccttctcg  CT-rich tract
                         tcaattgtaaatttt  TA-rich tract