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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATCCGGAGCACATTTTTCTCACCGATGGTGCAAGCAAGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctttttcctgctttacttaaatagagacgatgatcacacttcactcccag

Basic information

species Selaginella moellendorffii
transcript EFJ30498
intron # 5
splice site 5'
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|169066246|gb|FE475200.1|FE475200
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169046058|gb|FE453955.1|FE453955
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169058051|gb|FE463959.1|FE463959
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169054115|gb|FE462350.1|FE462350
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169059961|gb|FE467323.1|FE467323
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169056997|gb|FE466224.1|FE466224
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169100333|gb|FE501130.1|FE501130
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169035665|gb|FE445435.1|FE445435
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169098675|gb|FE497249.1|FE497249
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169078708|gb|FE486516.1|FE486516
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169111758|gb|FE511957.1|FE511957
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169067097|gb|FE474475.1|FE474475
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169045644|gb|FE452605.1|FE452605
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169042323|gb|FE452871.1|FE452871
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169057473|gb|FE465777.1|FE465777
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169036858|gb|FE444975.1|FE444975
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169097504|gb|FE497946.1|FE497946
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169106601|gb|FE504636.1|FE504636
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
EST: gi|169065718|gb|FE476206.1|FE476206
EST:     AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGG                         GTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT
genomic: AGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTT

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), 35 (downstream exon)
Score: 63

TGATCCGGAGCACATTTTTCTCACCGATGGTGCAAGCAAGGGAGTCATGATGATGCTAAACGCACTAATTCGAAACGAGAAAGACGGGgtaacttctt ... tcactcccagGTTTTAGTGCCAATTCCACAGTACCCACTATACTCGGCAAGCATTGCTCTTTACGGTGGAATTCTCATTCCCTACTACTTAAATGAGGAATCTAACTGGA




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