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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGGTATCGTGCCGACGCTCTTTGGCGACCGCTTGTTCTCCTCCCACCGAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaatcctatgacactctctgccattgctgatctcatacttttactgtttcttcctcag

Basic information

species Selaginella moellendorffii
transcript EFJ13527
intron # 3
splice site 5'
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|169053892|gb|FE460983.1|FE460983
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169056051|gb|FE465603.1|FE465603
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169053891|gb|FE460982.1|FE460982
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169036019|gb|FE446725.1|FE446725
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169029062|gb|FE437565.1|FE437565
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169110151|gb|FE513366.1|FE513366
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169063898|gb|FE471253.1|FE471253
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169060302|gb|FE467872.1|FE467872
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169056262|gb|FE464397.1|FE464397
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169100039|gb|FE502357.1|FE502357
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169022853|gb|FE430257.1|FE430257
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169101856|gb|FE504936.1|FE504936
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169067932|gb|FE473451.1|FE473451
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169022854|gb|FE430258.1|FE430258
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
EST: gi|169067931|gb|FE473450.1|FE473450
EST:     GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATG                         ATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT
genomic: GAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATAT

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: 27 (upstream exon), 28 (downstream exon)
Score: 3

TGGTGGTATCGTGCCGACGCTCTTTGGCGACCGCTTGTTCTCCTCCCACCGAAAGACATCCCAAACTTTGCGGACGCGTTTTTCAATATTGTTTTGAATGgcaagcaaat ... tcttcctcagATACGATGGTCCGGTTGTCTGCCATGGCATTCAAGTGCGGTGTTCTTATATACTACAAGAAAGGCCGAGGACGTAACTATCGATGGCAG




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