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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGCGCTCTTTTACGTTGATAGCGAAGGTGGAAGAACGAAAGGAACTCTTTTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatccttcttccgagttcttcgggtttcactgtgttccaatctcag

Basic information

species Selaginella moellendorffii
transcript EFJ25863
intron # 5
splice site 5'
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|70669750|gb|DN838327.1|DN838327
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|70670787|gb|DN839364.1|DN839364
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169066324|gb|FE473000.1|FE473000
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGATAGCGG                         GTATAAGTACGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169047645|gb|FE454813.1|FE454813
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169066323|gb|FE472999.1|FE472999
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGATAGCGG                         GTATAAGTACGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169062114|gb|FE469173.1|FE469173
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169038991|gb|FE447732.1|FE447732
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169053896|gb|FE460987.1|FE460987
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGATAGCGG                         GTATAAGTACGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|70669328|gb|DN837905.1|DN837905
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169062115|gb|FE469174.1|FE469174
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169019358|gb|FE427668.1|FE427668
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169106278|gb|FE507992.1|FE507992
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGATAGCGG                         GTATAAGTACGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169019357|gb|FE427667.1|FE427667
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
EST: gi|169047646|gb|FE454814.1|FE454814
EST:     TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGG                         GTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC
genomic: TTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGC

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), 30 (downstream exon)
Score: 16

CCGCGCTCTTTTACGTTGATAGCGAAGGTGGAAGAACGAAAGGAACTCTTTTCTCCGTTGGCTCTGGGTCTACTTACGCTTACGGCATTCTCGACAGCGGgtaagaatcc ... ccaatctcagGTATAAGTTCGAGATGAGCGTCGAGGAAGCCGTGGAGCTGGGAAGACGAGCGATCTATCACGCGACGTTTAGAGATGGAGCCAGCGGAGGAGTTGCGAGC




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