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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaataagttttgctttgaaaattcgattactcgatcacgaggtctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCCATCGCCCATGATGGGAATCTTCTCTTGTAAAGGTCCCAACCCTGTTGTC

Basic information

species Selaginella moellendorffii
transcript EFJ12969
intron # 7
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|169096207|gb|FE497793.1|FE497793
EST:     GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAG                         GAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
genomic: GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
EST: gi|169080834|gb|FE486666.1|FE486666
EST:     GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAG                         GAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
genomic: GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
EST: gi|169044347|gb|FE453285.1|FE453285
EST:     GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAG                         GAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
genomic: GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
EST: gi|169088286|gb|FE492004.1|FE492004
EST:     GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAG                         GAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
genomic: GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
EST: gi|169104871|gb|FE505414.1|FE505414
EST:     GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAG                         GAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
genomic: GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
EST: gi|169019530|gb|FE427411.1|FE427411
EST:     GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCGG                         GAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
genomic: GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
EST: gi|169022327|gb|FE431286.1|FE431286
EST:     GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAG                         GAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC
genomic: GTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCC

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: 31 (upstream exon), 33 (downstream exon)
Score: 8

ATGGCAAGGAGAGATTGCTGTCACTCAGATTCACGATGCCTGCTACTGAAGTTGGAAACACAGCTGCAAATTCTATTTCTTCCTACATCAAGTCAAGCAGgtaaataagt ... tctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCCATCGCCCATGATGGGAATCTTCTCTTGTAAAGGTCCCAACCCTGTTGTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaataagttttgctttgaaaattcgattactcgatcacgaggtctcttgtagGAATCCAACCGCAAAGATTATACCGCCAACAACAGTGATTAATCAGAAGCCATCGCCCATGATGGGAATCTTCTCTTGTAAAGGTCCCAACCCTGTTGTC
                                             tctcttgt  CT-rich tract
                tttgaaaatt  TA-rich tract