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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttctcgtctgggtggcactgacaaaccacgtcgtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTGGGGCTTCGTCACCTGTGTGTGACAGACTCTCACAACAG

Basic information

species Selaginella moellendorffii
transcript EFJ22729
intron # 18
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|169097232|gb|FE498974.1|FE498974
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169092757|gb|FE493699.1|FE493699
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169113458|gb|FE514993.1|FE514993
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169042334|gb|FE453389.1|FE453389
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169063171|gb|FE471693.1|FE471693
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169113457|gb|FE514992.1|FE514992
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169067944|gb|FE474789.1|FE474789
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169074515|gb|FE480849.1|FE480849
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169065188|gb|FE474012.1|FE474012
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169063170|gb|FE471692.1|FE471692
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
EST: gi|169050442|gb|FE459575.1|FE459575
EST:     AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACG                         GTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG
genomic: AAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTG

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), 31 (downstream exon)
Score: 64

AAAGAGAAATCTGGCCGAGGCGGACATGGCTCCAGACAAGAAGACAAAGAAAGTTGTAGCACTGGATTTGAGACCTTTTATGAATCGGGCACCTCTAACGgtaagctttc ... gtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTGGGGCTTCGTCACCTGTGTGTGACAGACTCTCACAACAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagctttctcgtctgggtggcactgacaaaccacgtcgtgtgtgcagGTTCGTCGGGAATGCTCGGCTCAGCGTGTCTATGTCATATTTAGAACCCTGGGGCTTCGTCACCTGTGTGTGACAGACTCTCACAACAG
                            cactgac  putative branch site (score: 64)