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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtggtgtctaataggcataattttctcttacattcgaagcacagGTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTGAATAACAGGCAGTATAGAG

Basic information

species Selaginella moellendorffii
transcript EFJ22768
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|169096682|gb|FE496812.1|FE496812
EST:     CAAACGACGACAAGGATAATGCTGTTTTGAAATCCGAGCAAGACGCTCAG                         GTGGGACATGGCAGCCGTGGTGACGTTACCATTTTACCAACACTAATCGTG
genomic: CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAGgtttgtggtg ... cgaagcacagGTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTG
EST: gi|169092914|gb|FE495208.1|FE495208
EST:     CAAACGACGACNAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAG                         GTGGGACATGGCAGC
genomic: CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAGgtttgtggtg ... cgaagcacagGTGGGACATGGCAGC
EST: gi|169096538|gb|FE499450.1|FE499450
EST:     CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAG                         GTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTG
genomic: CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAGgtttgtggtg ... cgaagcacagGTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTG
EST: gi|169050286|gb|FE458353.1|FE458353
EST:     CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAG                         GTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTG
genomic: CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAGgtttgtggtg ... cgaagcacagGTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTG
EST: gi|169081076|gb|FE486141.1|FE486141
EST:     CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAG                         GTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTG
genomic: CAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAGgtttgtggtg ... cgaagcacagGTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTG

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), 35 (downstream exon)
Score: 74

ATATTCCTGTGCACAAGGTGCGCGACTGTATGGGGAATCCAAACGACGACAAGGATAATGCTGTTCTGAAATCCGAGCAAGACGCTCAGgtttgtggtg ... cgaagcacagGTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTGAATAACAGGCAGTATAGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgtggtgtctaataggcataattttctcttacattcgaagcacagGTGGGACATGGCAGCCGTGGTGACGTTACCATTTTGCCAACACTAATAGTGAATAACAGGCAGTATAGAG
                                   ctcttac  putative branch site (score: 74)
                               ttttctcttacattc  CT-rich tract
                           ataattttctctta  TA-rich tract