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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagtatgtggcttttgatgcattcttgaactagcgtattgtgttttctgatctagATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG

Basic information

species Selaginella moellendorffii
transcript EFJ05715
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|169053819|gb|FE463406.1|FE463406
EST:     CAGTGAAATTTATTGGCTGGGGCACCACCGATGATGGAAAGGATTACTGG                         ATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG
genomic: CAGTGAAATTTATTGGCTGGGGCACCACCGATGATGGAAAGGATTACTGGgtaagcagta ... tctgatctagATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG
EST: gi|169053818|gb|FE463405.1|FE463405
EST:     CAGTGAAATTTATTGGCTGGGGCACCACCGATGATGGAAAGGATTACTGG                         ATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG
genomic: CAGTGAAATTTATTGGCTGGGGCACCACCGATGATGGAAAGGATTACTGGgtaagcagta ... tctgatctagATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG
EST: gi|169102210|gb|FE505797.1|FE505797
EST:     CAGTGAAATTTATTGGCTGGGGCACCACCGATGATGGAAAGGATTACTGG                         ATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG
genomic: CAGTGAAATTTATTGGCTGGGGCACCACCGATGATGGAAAGGATTACTGGgtaagcagta ... tctgatctagATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG

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), 34 (downstream exon)
Score: 132

CAAGTCTGGAGTTTATAAGCACGTTTTCGGTGAAGTCCTGGGTGGGCATGCAGTGAAATTTATTGGCTGGGGCACCACCGATGATGGAAAGGATTACTGGgtaagcagta ... tctgatctagATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtatgtggcttttgatgcattcttgaactagcgtattgtgttttctgatctagATTGTGGCAAACTCGTGGAACCGGTCATGGGGAGAG
                                            ttctgat  putative branch site (score: 132)
                                        tgttttct  CT-rich tract
           ttttgat  TA-rich tract