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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagtgttcctggaagtgatggcttgtaactaatgttttttttctttttgtgggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGATCGCCAACCTCATCAATTTTTCCAGGCTCGATGCCAAGATCGATTCGAAG

Basic information

species Selaginella moellendorffii
transcript EFJ05347
intron # 6
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|169019448|gb|FE427134.1|FE427134
EST:     CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGG                         GATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
genomic: CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGGgtaaaagtgt ... ggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
EST: gi|169077432|gb|FE485916.1|FE485916
EST:     CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGG                         GATGCTGTCTGACAAGCTTCACATGAAATACGACGATGCCGAGCGCTGGAT
genomic: CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGGgtaaaagtgt ... ggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
EST: gi|169059522|gb|FE468548.1|FE468548
EST:     CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGG                         GATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
genomic: CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGGgtaaaagtgt ... ggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
EST: gi|169068000|gb|FE476379.1|FE476379
EST:     CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGG                         GATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
genomic: CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGGgtaaaagtgt ... ggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
EST: gi|169059523|gb|FE468549.1|FE468549
EST:     CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGG                         GATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT
genomic: CTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGGgtaaaagtgt ... ggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGAT

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: 16

ACGGCTACATTGTGTACAAGTTCAGGGACGAGTTTTTGGAGAACGCACGCCTGGCAATGTTCGAGACATACTGCAAAATCCATCAAAGGATTGACATTGGgtaaaagtgt ... ggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGATCGCCAACCTCATCAATTTTTCCAGGCTCGATGCCAAGATCGATTCGAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctggaagtgatggcttgtaactaatgttttttttctttttgtgggatcctcagGATGCTGTCTGACAAGCTTCACATGAATTACGACGATGCCGAGCGCTGGATCGCCAACCTCATCAATTTTTCCAGGCTCGATGCCAAGATCGATTCGAAG
                    aactaat  putative branch site (score: 16)
                                                tcctc  putative PPT
                   taactaatgttttttt  TA-rich tract