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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGAGGAATGCCTGAAAAGGGAGAAGGAAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatttttgtggttcgaaaactgatttcacaaggaccgtttgtgtggtgagcag

Basic information

species Selaginella moellendorffii
transcript EFJ12300
intron # 6
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|169024336|gb|FE436185.1|FE436185
EST:     AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAG                         AAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
genomic: AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
EST: gi|169030508|gb|FE439518.1|FE439518
EST:     AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAG                         AAAGTACAACAAGAGTTACTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
genomic: AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
EST: gi|70669089|gb|DN837666.1|DN837666
EST:     AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAG                         AAAGTACAACAAGAGTTACTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
genomic: AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
EST: gi|169111912|gb|FE510642.1|FE510642
EST:     AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAG                         AAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
genomic: AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
EST: gi|169026189|gb|FE435347.1|FE435347
EST:     AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAG                         AAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
genomic: AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
EST: gi|169096071|gb|FE500036.1|FE500036
EST:     AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAG                         AAAGTACAACAAGAGTTACTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
genomic: AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
EST: gi|169027130|gb|FE435040.1|FE435040
EST:     AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAG                         AAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG
genomic: AAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAG

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: 11

GCGGAGGAATGCCTGAAAAGGGAGAAGGAAAGAGTTGGACACTACTTGCACTCAAGCAGTGAATCGAAGCTACTCGAGgtaaatgatt ... tggtgagcagAAAGTACAACAAGAGTTGCTTTCACAGTACGAGCAACAGCTCCTTGAGAAGGAACATTCTGGCTGCCATGCTTTGTTAAGGGACGACAAA




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