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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagagatttgcttttgctctcctttctcttttgtgtttagaagctgagtttggatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAGATAGAGTTTTTTGTCGACCCGGTCGACAAATCTCACCCAAGGTTCGGCA

Basic information

species Selaginella moellendorffii
transcript EFJ16329
intron # 3
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|169096780|gb|FE499796.1|FE499796
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169071770|gb|FE477147.1|FE477147
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGTAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169066176|gb|FE475169.1|FE475169
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGTAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169037417|gb|FE445508.1|FE445508
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGTAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169075797|gb|FE482794.1|FE482794
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGTAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169113224|gb|FE515497.1|FE515497
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGTAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169028252|gb|FE434051.1|FE434051
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGTAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169108055|gb|FE513299.1|FE513299
EST:     GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: GCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
EST: gi|169108316|gb|FE511961.1|FE511961
EST:     CAGCTCAAGTCGGCCAGGCATTTCGTAACGAG                         ATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG
genomic: CAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAG

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: 21 (upstream exon), 33 (downstream exon)
Score: 9

TGCTCAGGGAATGTTTGTCAATTTCAACGAGCTGCTGCTTTATAACGGTGGCAAACTACCTTTTGGTGCAGCTCAAGTCGGCCAGGCATTTCGAAACGAGgtagagattt ... gatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAGATAGAGTTTTTTGTCGACCCGGTCGACAAATCTCACCCAAGGTTCGGCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcttttgctctcctttctcttttgtgtttagaagctgagtttggatgcttcagATTTCTCCACGACAAGGTTTGCTGAGGGTGCGCGAGTTTACGCTCGCGGAGATAGAGTTTTTTGTCGACCCGGTCGACAAATCTCACCCAAGGTTCGGCA
                            tttagaa  TA-rich tract