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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgaaggatatttcttctaagcgatagagtaatctttgtctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTTTCAGTTTTACTCTTTCAG

Basic information

species Selaginella moellendorffii
transcript EFJ10973
intron # 4
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:     TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAG                         GTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
genomic: TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAGgtacgtgaag ... tctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
EST: gi|169052985|gb|FE460700.1|FE460700
EST:     TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAG                         GTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
genomic: TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAGgtacgtgaag ... tctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
EST: gi|169059437|gb|FE467540.1|FE467540
EST:     TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACGGCCGTCGTCCTGCAG                         GTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
genomic: TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAGgtacgtgaag ... tctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
EST: gi|169064218|gb|FE471573.1|FE471573
EST:     TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACGGCCGTCGTCCTGCAG                         GTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
genomic: TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAGgtacgtgaag ... tctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
EST: gi|169022442|gb|FE430795.1|FE430795
EST:     TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAG                         GTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT
genomic: TTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAGgtacgtgaag ... tctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTT

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: 17

GTCTGGCTTGTTTGCGTACTACGTCTCAGGACTTACACTTCCTGCTGCTATTGTAATCGGCAATGGATTGGCGCTCTCGTCCACTGCCGTCGTCCTGCAGgtacgtgaag ... tctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTTTCAGTTTTACTCTTTCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacgtgaaggatatttcttctaagcgatagagtaatctttgtctttttcagGTGCTCCAAGAGCGTGGTGAAAGCACATCTCGTCATGGCCGTTCGGCATTTTCAGTTTTACTCTTTCAG
                                         tctttgtctttttc  CT-rich tract
              atatttctt  TA-rich tract