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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcactgccatacctctttcacgtccttgaaattttactttctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT

Basic information

species Selaginella moellendorffii
transcript EFJ30330
intron # 18
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|169116507|gb|FE517532.1|FE517532
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169094896|gb|FE491630.1|FE491630
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169105223|gb|FE504895.1|FE504895
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169075917|gb|FE482836.1|FE482836
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169058960|gb|FE467728.1|FE467728
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169116508|gb|FE517533.1|FE517533
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169055454|gb|FE465852.1|FE465852
EST:     CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169074665|gb|FE480895.1|FE480895
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169026429|gb|FE434742.1|FE434742
EST:     CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169096020|gb|FE500011.1|FE500011
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169026425|gb|FE435778.1|FE435778
EST:     CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169083647|gb|FE495380.1|FE495380
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169038845|gb|FE446988.1|FE446988
EST:     CCGTTTGGATGATGCGAAACATCGTCCATTTTTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169067637|gb|FE475314.1|FE475314
EST:     CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169047686|gb|FE454854.1|FE454854
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGTATTCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169077658|gb|FE484920.1|FE484920
EST:     CCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
EST: gi|169045568|gb|FE452529.1|FE452529
EST:     CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAG                         GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC
genomic: CCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATC

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: 23 (upstream exon), 27 (downstream exon)
Score: 14

ATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactg ... tctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatgcactgccatacctctttcacgtccttgaaattttactttctcttgcagGCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT
                                      ttttactttctcttgc  CT-rich tract
                               ttgaaattttacttt  TA-rich tract