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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacatgtcactgaattagcattcgtttcttatctttccgtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGAAACCGGCTCTGCGACCCCTTACATGGCTGCAATTCCTGAATATCGTGTG

Basic information

species Selaginella moellendorffii
transcript EFJ14342
intron # 7
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|169112293|gb|FE512700.1|FE512700
EST:     TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTG                         GCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
genomic: TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
EST: gi|169111964|gb|FE510668.1|FE510668
EST:     TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTG                         GCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
genomic: TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
EST: gi|169025173|gb|FE434110.1|FE434110
EST:     TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTG                         GCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
genomic: TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
EST: gi|169114245|gb|FE515780.1|FE515780
EST:     TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTG                         GCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
genomic: TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
EST: gi|169023113|gb|FE429165.1|FE429165
EST:     TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTG                         GCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
genomic: TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
EST: gi|169078171|gb|FE488826.1|FE488826
EST:     TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTG                         GCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
genomic: TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
EST: gi|169025078|gb|FE433859.1|FE433859
EST:     TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTG                         GCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA
genomic: TGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGA

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: 21

GTGCAAAGCGGCTACTGAAATGCGGTCTTGGTGACGATGATCAGTGTATTGAGGATGATTTTACGGCCTGgtaaacatgt ... gtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGAAACCGGCTCTGCGACCCCTTACATGGCTGCAATTCCTGAATATCGTGTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaacatgtcactgaattagcattcgtttcttatctttccgtttgcttagGCGTGAGCAATTGTGGCCCGAGCTTGATGTGCTACTGCGTAGCGAAGATGAAACCGGCTCTGCGACCCCTTACATGGCTGCAATTCCTGAATATCGTGTG
                              ttcgtttcttatcttt  CT-rich tract
                               tttcttat  TA-rich tract