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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatgagagttcatcttcgtgtgctcaagctttttcatgtttttttttgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGTTGCTGTGGTCTCGATCCCTGTAAGGATTCCTTATGGTTTCCACTCGATT

Basic information

species Selaginella moellendorffii
transcript EFJ09546
intron # 12
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|169045510|gb|FE450703.1|FE450703
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|70669704|gb|DN838281.1|DN838281
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169041728|gb|FE449299.1|FE449299
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169115409|gb|FE516150.1|FE516150
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169060191|gb|FE467553.1|FE467553
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169054032|gb|FE461331.1|FE461331
EST:     GATGAAGACGATGGCTACGTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169106154|gb|FE507946.1|FE507946
EST:     GATGAAGACTATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169052818|gb|FE461196.1|FE461196
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169099587|gb|FE502620.1|FE502620
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169029568|gb|FE438929.1|FE438929
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169096935|gb|FE497065.1|FE497065
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169078720|gb|FE487555.1|FE487555
EST:     GATGAAGACGATGGCTACGTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169078771|gb|FE489621.1|FE489621
EST:     GATGAAGACGATGGCTACGTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169088168|gb|FE493394.1|FE493394
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169075080|gb|FE481453.1|FE481453
EST:     GATGAAGACGATGGCTACGTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
EST: gi|169088396|gb|FE495442.1|FE495442
EST:     GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGG                         AAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT
genomic: GATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGT

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: 15 (upstream exon), 35 (downstream exon)
Score: 65

GGTTTGGCTCCGAGGCGGTGTTTGTTCCAAAGAGCTCGGACAAGGACGCGGATGAAGACGATGGCTACCTCATCTCTTTTGTTTACGACGAAGGGGCGGGgtaagatgag ... tgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGTTGCTGTGGTCTCGATCCCTGTAAGGATTCCTTATGGTTTCCACTCGATT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgagagttcatcttcgtgtgctcaagctttttcatgtttttttttgtcttccagAAAATCGGAGGCAGTCGTGATTGATGCCAAGACAATGGCAGCCGATCCAGTTGCTGTGGTCTCGATCCCTGTAAGGATTCCTTATGGTTTCCACTCGATT
                           ctttttcatgtttttt  CT-rich tract
                            tttttcatgttttttt  TA-rich tract