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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgcaagggatggtttacgtccatcactgactgtacttggttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTATGTACATTGAAACCAGTGCCAAGGCCGGATTCAACATCAAG

Basic information

species Selaginella moellendorffii
transcript EFJ30542
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|169047767|gb|FE454623.1|FE454623
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
EST: gi|169042136|gb|FE454179.1|FE454179
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
EST: gi|70669602|gb|DN838179.1|DN838179
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
EST: gi|169074100|gb|FE481747.1|FE481747
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
EST: gi|169074099|gb|FE481746.1|FE481746
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
EST: gi|169054140|gb|FE462375.1|FE462375
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
EST: gi|169036632|gb|FE446556.1|FE446556
EST:     GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAG                         GCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT
genomic: GATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTAT

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), 35 (downstream exon)
Score: 105

TTCTAAACACGGCCAGATGGGTGGAAGAAGTCCGCACGGAGCGGGGTAGCGATGTCATCATCGTTCTCGTCGGGAACAAGACGGATTTGGTTGATAAAAGgtgtgtgcaa ... gttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTATGTACATTGAAACCAGTGCCAAGGCCGGATTCAACATCAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgtgcaagggatggtttacgtccatcactgactgtacttggttggagcagGCAAGTATCGATCGAGGAGGGCGATGCGAAAGCGAGAGAATTCGGAGTTATGTACATTGAAACCAGTGCCAAGGCCGGATTCAACATCAAG
                              cactgac  putative branch site (score: 105)