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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcacgttctagaatccccccttcatgccattaatccatgtacttggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGATCGTCTTGATGAACAACAAAAGCACTTAAAGCTTCCTATTCTGCCAACAA

Basic information

species Selaginella moellendorffii
transcript EFJ05611
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|169034511|gb|FE446430.1|FE446430
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169109956|gb|FE511104.1|FE511104
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169044231|gb|FE452961.1|FE452961
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169048326|gb|FE457314.1|FE457314
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169046492|gb|FE457444.1|FE457444
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169065232|gb|FE474056.1|FE474056
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169019703|gb|FE428013.1|FE428013
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCT
EST: gi|169103053|gb|FE504755.1|FE504755
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169050435|gb|FE458853.1|FE458853
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169060948|gb|FE470578.1|FE470578
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
EST: gi|169108856|gb|FE509173.1|FE509173
EST:     CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCG                         GCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT
genomic: CCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGAT

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), 34 (downstream exon)
Score: 134

GAGTTCTTTGCGGCCAATGCATCTGCTCAGGCCTCTAGGAAGACGTCTCCTAGAGTCCACAACGACGAAGTGAAGAAGGCGgtaagcacgt ... ggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGATCGTCTTGATGAACAACAAAAGCACTTAAAGCTTCCTATTCTGCCAACAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcacgttctagaatccccccttcatgccattaatccatgtacttggtgtctcagGCTGCTGCCCTTCAAGGATCGGAGCACAGGCGTGCAACTCCTGTGGCAGATCGTCTTGATGAACAACAAAAGCACTTAAAGCTTCCTATTCTGCCAACAA
                            cattaat  putative branch site (score: 134)
                             attaat  TA-rich tract