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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagggagatttttttcttcgatctattgcttttctcatgttttggttttggtagGTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTACGTGATCAACGTGAAACAAATAGCAAAA

Basic information

species Selaginella moellendorffii
transcript EFJ29161
intron # 3
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|169072907|gb|FE482335.1|FE482335
EST:     GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAA                         GTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC
genomic: GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAAgtaagggaga ... gttttggtagGTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC
EST: gi|169115912|gb|FE518094.1|FE518094
EST:     GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAA                         GTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC
genomic: GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAAgtaagggaga ... gttttggtagGTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC
EST: gi|169076506|gb|FE486069.1|FE486069
EST:     GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAA                         GTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC
genomic: GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAAgtaagggaga ... gttttggtagGTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC
EST: gi|169080422|gb|FE488438.1|FE488438
EST:     GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAA                         GTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC
genomic: GGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAAgtaagggaga ... gttttggtagGTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTAC

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), 34 (downstream exon)
Score: 66

GGATCAAGGAGTCCGACACTGGTCTAGCAGCTCCTAGCCAGTGGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAAgtaagggaga ... gttttggtagGTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTACGTGATCAACGTGAAACAAATAGCAAAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagggagatttttttcttcgatctattgcttttctcatgttttggttttggtagGTTGCTCGTTGCACCAAGATCATCAATCCAGGCGCGGACGATTCAAAGTACGTGATCAACGTGAAACAAATAGCAAAA
        atttttttctt  TA-rich tract