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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaggttccttctaacacatgattaatttcttgtttgtctctcgatgccaacgagaatttgtttcttattttcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCCCATAAAGTCAACACCCCCGCTTGGGATGCCATTAAAAAG

Basic information

species Selaginella moellendorffii
transcript EFJ27458
intron # 11
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|169030320|gb|FE440045.1|FE440045
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCANACCAA                         ACACCCGACGACCTTTGGGCTAA-CACTCTAAAGTCGTCTATCCAAAGCCC
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
EST: gi|169095351|gb|FE496742.1|FE496742
EST:     TGCTGCNCA-TGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAN                         ACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
genomic: TGCTGC-CAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
EST: gi|169080014|gb|FE487900.1|FE487900
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAA                         ACACCCGACGACCTTTGNGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
EST: gi|169063068|gb|FE471174.1|FE471174
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAA                         ACACCTGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
EST: gi|169020233|gb|FE430323.1|FE430323
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAA                         G
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccag-
EST: gi|169020233|gb|FE430323.1|FE430323
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAA                         G
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccag-
EST: gi|169020233|gb|FE430323.1|FE430323
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAA                         G
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccag-
EST: gi|169020233|gb|FE430323.1|FE430323
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAA                         G
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccag-
EST: gi|169108087|gb|FE511030.1|FE511030
EST:     CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAA                         ACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
genomic: CTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCC
EST: gi|169030748|gb|FE440863.1|FE440863
EST:     TGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGNCAA-CCAA                         ACACCCGACGACCTTTGGGCTAAACACTCTANAGTCGTCTATCCAAAGCC
genomic: TGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATG-CAAACCAAgtcaggttcc ... tcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCC

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: 32 (upstream exon), 31 (downstream exon)
Score: 9

GTTCGTGCGACTGCTGCCAATGTTGATGAAGCTGTTCGAGAGCTTCCTGATGCAAACCAAgtcaggttcc ... tcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCCCATAAAGTCAACACCCCCGCTTGGGATGCCATTAAAAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttgtttgtctctcgatgccaacgagaatttgtttcttattttcgtgtccagACACCCGACGACCTTTGGGCTAAACACTCTAAAGTCGTCTATCCAAAGCCCCATAAAGTCAACACCCCCGCTTGGGATGCCATTAAAAAG
                               tttgtttcttattttc  CT-rich tract
                             aatttgtttcttattt  TA-rich tract