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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacattttgctttgtttcccttctatgtctgaaatgcgtagcgatgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTCGTCCTATACTGACGTTCTCATCGAGTTTCGACAAGCAGCCCCACTTAAG

Basic information

species Selaginella moellendorffii
transcript EFJ12424
intron # 3
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|169061551|gb|FE469338.1|FE469338
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169049031|gb|FE456109.1|FE456109
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169060063|gb|FE468673.1|FE468673
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169071863|gb|FE477617.1|FE477617
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169060062|gb|FE468672.1|FE468672
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169099356|gb|FE502129.1|FE502129
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169071864|gb|FE477618.1|FE477618
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169053952|gb|FE461251.1|FE461251
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
EST: gi|169099357|gb|FE502130.1|FE502130
EST:     GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGG                         TGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC
genomic: GATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTC

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: 33 (upstream exon), 32 (downstream exon)
Score: 11

TGCAGGAAAAGACAGGATTTGTATCTGTGGATGACTAAGTTTCCTGGCGGACCATCTATCAAGTTCTTAGTGAACGCGGgtaacatttt ... tgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTCGTCCTATACTGACGTTCTCATCGAGTTTCGACAAGCAGCCCCACTTAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacattttgctttgtttcccttctatgtctgaaatgcgtagcgatgttttgcagTGCACACTATGGCGGAGCTAAAACTTACAGGCAACCATTTGAAAGGATCTCGTCCTATACTGACGTTCTCATCGAGTTTCGACAAGCAGCCCCACTTAAG
           tttgttt  TA-rich tract