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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCATGGTGTCATGACTTTCTTTGGACGGCTGGCAATTCTGATTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacagggacgagtggaagagtttgctcatgtgtgacttccgtcttacgcag

Basic information

species Selaginella moellendorffii
transcript EFJ22276
intron # 4
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|169109588|gb|FE510022.1|FE510022
EST:     TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAA                         CTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
EST: gi|169069972|gb|FE480393.1|FE480393
EST:     TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAA                         CTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
EST: gi|169069457|gb|FE479514.1|FE479514
EST:     TTGACGAGAACACTCANGCTTTCCATTTTTTCATCACGGCGCTTCTTCAA                         CTGTGTGATCGGGCTGGGATTCTTTAC
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTAC
EST: gi|169100776|gb|FE502184.1|FE502184
EST:     TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAA                         CTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
EST: gi|169109589|gb|FE510023.1|FE510023
EST:     TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAA                         CTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACG
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACG
EST: gi|169026307|gb|FE433398.1|FE433398
EST:     TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAA                         CTGTGTGATCGGGCTGAGAT-CTTTA
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTA
EST: gi|169100777|gb|FE502185.1|FE502185
EST:     TGACGAGAACACTCANGCTTTCCATTTTTTCATCACGGCGCTTCTTTCA-                         CTGTGTGATCGGGCT
genomic: TGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTT-CAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCT
EST: gi|169020193|gb|FE428242.1|FE428242
EST:     TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAA                         CTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
EST: gi|169069456|gb|FE479513.1|FE479513
EST:     TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTTTTCAA                         CTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG
genomic: TTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTG

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: 26 (upstream exon), 33 (downstream exon)
Score: 24

CTTCATGGTGTCATGACTTTCTTTGGACGGCTGGCAATTCTGATTGACGAGAACACTCAGGCTTTCCATTTTTTCATCACGGCGCTTCTTCAAgtacgtacag ... tcttacgcagCTGTGTGATCGGGCTGGGATTCTTTACGGGGAGCTCGCACGATTCGTGTTGCGCCTGTTGGGCTTCAGGCCGAGATCGCCGAAGGCTCGCTCTGTGGCAG




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