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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCCCAATACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaaaactcaaaaaagaaagagagagctatatcttaaagctggattttgtgagcag

Basic information

species Selaginella moellendorffii
transcript EFJ15233
intron # 9
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|169078263|gb|FE487332.1|FE487332
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCGCACGAGAAAGGCTGGTTGAATTGGAGCTC
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
EST: gi|70669827|gb|DN838404.1|DN838404
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTNCTGTA-GATCGCACGAGAA
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTT-CTGTAAGATCGTACGAGAA
EST: gi|169078264|gb|FE487333.1|FE487333
EST:     CGTTCCTGCGANGAAA-CCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCG
genomic: CGTTCCTGCGA-GAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCG
EST: gi|169042434|gb|FE453437.1|FE453437
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCGCACGAGAAAGGCTGGTTGAATTGGAGCTC
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
EST: gi|169065621|gb|FE474328.1|FE474328
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCG
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCG
EST: gi|169065620|gb|FE474327.1|FE474327
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCGCACGAGAAAGGCTGGTTGAATTGGAGCTC
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
EST: gi|169062994|gb|FE471100.1|FE471100
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCGCACGAGAAAGGCTGGTTGAATTGGAGCTC
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
EST: gi|169045906|gb|FE453920.1|FE453920
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCGCACGAGAAAGGCTGGTTGAATTGGAGCTC
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
EST: gi|169049163|gb|FE457151.1|FE457151
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
EST: gi|169062995|gb|FE471101.1|FE471101
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGNTA-GATCGCACGAGAAAGGCTGGTTGAATTGGAG
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTG-TAAGATCGTACGAGAAAGGCTGGTTGAATTGGAG
EST: gi|169049164|gb|FE457152.1|FE457152
EST:     ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAG                         CTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC
genomic: ACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTC

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: 19 (upstream exon), 26 (downstream exon)
Score: 14

GGATCCCAATACGTTCCTGCGAGAAAACCAGACAAGCCTCTAAAGATCTGGGCGTACGAGgtgaattgaa ... ttgtgagcagCTTTCGCCTTTCTGTAAGATCGTACGAGAAAGGCTGGTTGAATTGGAGCTCCCTCACGTTTACTACAA




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