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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatatagcgctttcgccatctctttgacaagtttggatgaatcgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATCGCCAAGAATGCAGGAGTGAACGGGAGCGTGGTCGTCGAAAAG

Basic information

species Selaginella moellendorffii
transcript EFJ16507
intron # 10
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|169030583|gb|FE439541.1|FE439541
EST:     CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAG                         ATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
genomic: CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAGgtaaggatat ... cgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
EST: gi|169072619|gb|FE481584.1|FE481584
EST:     CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAG                         ATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
genomic: CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAGgtaaggatat ... cgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
EST: gi|169088884|gb|FE494422.1|FE494422
EST:     CGAAGAAAGTGGATGCCATCAAGGAAACGCTCGAAAACCAGGAGCAAAAG                         ATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
genomic: CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAGgtaaggatat ... cgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
EST: gi|169082801|gb|FE486256.1|FE486256
EST:     CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAG                         ATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
genomic: CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAGgtaaggatat ... cgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
EST: gi|169076090|gb|FE484392.1|FE484392
EST:     CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAG                         ATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC
genomic: CGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAGgtaaggatat ... cgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATC

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: 34 (upstream exon), 33 (downstream exon)
Score: 56

TGTTGAGGAAGGCATCGTTGTTGGTGGAGGCACAGCTCTTTTGAGGCTGTCGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGCAAAAGgtaaggatat ... cgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATCGCCAAGAATGCAGGAGTGAACGGGAGCGTGGTCGTCGAAAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggatatagcgctttcgccatctctttgacaagtttggatgaatcgcttgccagATTGGCGCAGACATTGTCAAGCGCGCCTTGGGCTACCCGATCAAACTCATCGCCAAGAATGCAGGAGTGAACGGGAGCGTGGTCGTCGAAAAG
                        ctttgac  putative branch site (score: 56)