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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgcaagggatggtttacgtccatcactgactgtacttggttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCATGTACATTGAAACCAGTGCCAAGGCCGGATTCAACATCAAG

Basic information

species Selaginella moellendorffii
transcript EFJ22994
intron # 4
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|169040413|gb|FE450298.1|FE450298
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169042135|gb|FE454178.1|FE454178
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169033383|gb|FE441762.1|FE441762
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169039199|gb|FE447795.1|FE447795
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169047766|gb|FE454622.1|FE454622
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169033384|gb|FE441763.1|FE441763
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169101421|gb|FE502538.1|FE502538
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169039198|gb|FE447794.1|FE447794
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169101420|gb|FE502537.1|FE502537
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169036631|gb|FE446555.1|FE446555
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
EST: gi|169104604|gb|FE508204.1|FE508204
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCAT

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: 35 (upstream exon), 34 (downstream exon)
Score: 47

TTCTAAACACGGCCAGATGGGTGGAAGAAGTCCGCACGGAGCGGGGTAGCGATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCATGTACATTGAAACCAGTGCCAAGGCCGGATTCAACATCAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgtgcaagggatggtttacgtccatcactgactgtacttggttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTCATGTACATTGAAACCAGTGCCAAGGCCGGATTCAACATCAAG
                              cactgac  putative branch site (score: 47)