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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttacttctttctctctatttgttcttacgctcgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCATTCAGGGCCCTTCTTGATGTTGGCCTGGTCCGGACTACAACGGGCAACC

Basic information

species Selaginella moellendorffii
transcript EFJ17161
intron # 5
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|169079162|gb|FE490909.1|FE490909
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169079163|gb|FE490910.1|FE490910
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169033526|gb|FE442078.1|FE442078
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169110841|gb|FE509324.1|FE509324
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169051355|gb|FE459213.1|FE459213
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169110842|gb|FE509325.1|FE509325
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169039069|gb|FE448785.1|FE448785
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169051354|gb|FE459212.1|FE459212
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|70670052|gb|DN838629.1|DN838629
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169106956|gb|FE508839.1|FE508839
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGANGGAAACACTGAT                         GTGGATGGTGAGGACTAC
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTAC
EST: gi|169041727|gb|FE449298.1|FE449298
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
EST: gi|169033527|gb|FE442079.1|FE442079
EST:     GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGAT                         GTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA
genomic: GGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCA

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: 34 (upstream exon), 35 (downstream exon)
Score: 167

CTTACTGCACGGGGCTGCTGCTGGCAAGGAGGCTGCTCACGAAAATGGGCATGGCTGACATCTACGAGGGAAACACTGATgtaagtttta ... cgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCATTCAGGGCCCTTCTTGATGTTGGCCTGGTCCGGACTACAACGGGCAACC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagttttacttctttctctctatttgttcttacgctcgggacacagGTGAATGGTGAGGACTACAACGTTGAAACTCTGGACGAGAACAGGCGTCCATTCAGGGCCCTTCTTGATGTTGGCCTGGTCCGGACTACAACGGGCAACC
                                   ttcttac  putative branch site (score: 167)
            ttttacttctttctct  CT-rich tract
        taagtttta  TA-rich tract