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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcggcaatgtgttatctactgctatactaattccatcttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG

Basic information

species Selaginella moellendorffii
transcript EFJ18540
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|169107452|gb|FE509140.1|FE509140
EST:     ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
genomic: ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
EST: gi|169105291|gb|FE507628.1|FE507628
EST:     ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
genomic: ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
EST: gi|169102152|gb|FE505778.1|FE505778
EST:     ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
genomic: ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
EST: gi|169105683|gb|FE508449.1|FE508449
EST:     ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
genomic: ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
EST: gi|169040327|gb|FE450251.1|FE450251
EST:     GCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
genomic: GCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
EST: gi|169049667|gb|FE457759.1|FE457759
EST:     ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
genomic: ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
EST: gi|169049666|gb|FE457758.1|FE457758
EST:     ATTTTTTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTTTGACAGTGTCATAATCGGG
genomic: ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
EST: gi|169051997|gb|FE460336.1|FE460336
EST:     ATCTTTTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGAC                         GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
genomic: ATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG

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: 25 (upstream exon), 35 (downstream exon)
Score: 8

TTTCACATTTTGTTTTGCATCTTCTGCGCCGTCGCTCCTCCCATTGTGTTCAAAGGAAGATCATTGACgtaagcggca ... ttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagcggcaatgtgttatctactgctatactaattccatcttttatgcagGGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG
                                tactaat  putative branch site (score: 8)
                                      ttccatctttt  CT-rich tract
                              tatactaatt  TA-rich tract