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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctgaaaactttcgttttggttagctgagtaatttgctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCAGAAACCGAGTTCGCTCTACAAGTTGAATCCGATATTGCACCATATCGGG

Basic information

species Selaginella moellendorffii
transcript EFJ10973
intron # 8
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|169019928|gb|FE431019.1|FE431019
EST:     CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGG                         GCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCTTTTTGTC
genomic: CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGGgtacctgaaa ... ctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTC
EST: gi|169045259|gb|FE453572.1|FE453572
EST:     CGGCAAACACTCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGG                         GCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
genomic: CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGGgtacctgaaa ... ctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
EST: gi|169052985|gb|FE460700.1|FE460700
EST:     CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGG                         GCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
genomic: CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGGgtacctgaaa ... ctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
EST: gi|169059437|gb|FE467540.1|FE467540
EST:     CGGCAAACACTCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGG                         GCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
genomic: CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGGgtacctgaaa ... ctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
EST: gi|169064218|gb|FE471573.1|FE471573
EST:     CGGCAAACACTCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGG                         GCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
genomic: CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGGgtacctgaaa ... ctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
EST: gi|169022442|gb|FE430795.1|FE430795
EST:     CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGG                         GCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA
genomic: CGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGGgtacctgaaa ... ctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCA

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), 35 (downstream exon)
Score: 10

TCGTCCTATATACCGGAGTATGGCTGAAAATCACAATGCCGAAATATTTGCGGCAAACACGCTGCTCGTTGTTCTTGGAACTAGCGTTCTCACTGCCAGGgtacctgaaa ... ctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCAGAAACCGAGTTCGCTCTACAAGTTGAATCCGATATTGCACCATATCGGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacctgaaaactttcgttttggttagctgagtaatttgctttgtgcagGCCGGGCTTTCTATGGCCCTTGGCGCGTTTCTTGCTGGACTCCTTTTGTCAGAAACCGAGTTCGCTCTACAAGTTGAATCCGATATTGCACCATATCGGG
                                              tttgcttt  CT-rich tract
             aaaacttt  TA-rich tract