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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttgcaaactttaagctttctatcaaatgctcgtttttgttttgttttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAGTACCTTGTAGATAAATACG

Basic information

species Selaginella moellendorffii
transcript EFJ15233
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|169078263|gb|FE487332.1|FE487332
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|70669827|gb|DN838404.1|DN838404
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169078264|gb|FE487333.1|FE487333
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169042434|gb|FE453437.1|FE453437
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169065621|gb|FE474328.1|FE474328
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169065620|gb|FE474327.1|FE474327
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169062994|gb|FE471100.1|FE471100
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169045906|gb|FE453920.1|FE453920
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169049163|gb|FE457151.1|FE457151
EST:     ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169062995|gb|FE471101.1|FE471101
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169049164|gb|FE457152.1|FE457152
EST:     ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169042435|gb|FE453438.1|FE453438
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
EST: gi|169045907|gb|FE453921.1|FE453921
EST:     ATCGACCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATG                         GTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG
genomic: ATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAG

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: 33 (upstream exon), 34 (downstream exon)
Score: 27

CCTGGATCTCGACATCTTGTTTTATCCCTGTCCTAAAGACGGTCCAACCTATCGTCCCAAAGCTATCGAACTTGGTGGTAAAAAGCAATTCCCTTACATGgtaagctttg ... ttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAGTACCTTGTAGATAAATACG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcaaactttaagctttctatcaaatgctcgtttttgttttgttttttcgtcagGTAGATCCCAACACGGATGTTGCAATGTACGAATCGGATGAAATCATCAAGTACCTTGTAGATAAATACG
                            ctcgtttttgttttgt  CT-rich tract
                                tttttgttttgttttt  TA-rich tract