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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgctttgtctcctgcttttttctcgttccgttcatgttcaacgtacgagcagGTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG

Basic information

species Selaginella moellendorffii
transcript EFJ05345
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|169028872|gb|FE438584.1|FE438584
EST:     TCCCTCGGGAGAGGAAGACGTTCCTCTTCTCTGCTACAATGACAAACAAG                         GTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG
genomic: TCCCTCGGGAGAGGAAGACGTTCCTCTTCTCTGCTACAATGACAAACAAGgtgcgctttg ... gtacgagcagGTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG
EST: gi|169065582|gb|FE474835.1|FE474835
EST:     TCCCTCGGGAGAGGAAGACGTTCCTCTTCTCTGCTACAATGACAAACAAG                         GTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG
genomic: TCCCTCGGGAGAGGAAGACGTTCCTCTTCTCTGCTACAATGACAAACAAGgtgcgctttg ... gtacgagcagGTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG
EST: gi|169063562|gb|FE471980.1|FE471980
EST:     TCCCTCGGGAGAGGAAGACGTTCCTCTTCTCTGCTACAATGACAAACAAG                         GTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG
genomic: TCCCTCGGGAGAGGAAGACGTTCCTCTTCTCTGCTACAATGACAAACAAGgtgcgctttg ... gtacgagcagGTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG

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), 35 (downstream exon)
Score: 11

GATCCTGCACAACGATTTCGAGAAGGAGGTCGATGAGATCCTCAAGGTTGTCCCTCGGGAGAGGAAGACGTTCCTCTTCTCTGCTACAATGACAAACAAGgtgcgctttg ... gtacgagcagGTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcgctttgtctcctgcttttttctcgttccgttcatgttcaacgtacgagcagGTGGCAAAACTTCAACGAGCCTGTCTTCGAAATCCGACAAAG
                  ttttttct  TA-rich tract