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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTATGCTCTTTGTTTCTTCTCTTCAAATTTATTCCCAAGGAGCTGATCAACGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAACgtaagtaacttgtgtgtcaaggaaaattaactcattgttcttgtag

Basic information

species Selaginella moellendorffii
transcript EFJ18240
intron # 3
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|169110321|gb|FE512080.1|FE512080
EST:     TACTTCGTGGGTCTCGGAGTTCTTGCTCTAAC                         TGCTACCATCTGGCCAGATGTCAAAGATTTCATCCCAAAGGCCTGGGACGA
genomic: TACTTCGTGGTTCTCGGAGTTCTTGCTCTAACgtaagtaact ... gttcttgtagTGCTACCATCTGGCCAGATGTCAAAGACTTCATTCCAAAGGCCTGGGACGA
EST: gi|169110322|gb|FE512081.1|FE512081
EST:     AATGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAAC                         TGCTACCATCTGGCCAGATGTCAAAGATTTCATTCCAAAGGCCTGGGACGA
genomic: AACGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAACgtaagtaact ... gttcttgtagTGCTACCATCTGGCCAGATGTCAAAGACTTCATTCCAAAGGCCTGGGACGA
EST: gi|169059126|gb|FE468271.1|FE468271
EST:     AACGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAAC                         TGCTACCATCTGGCCAGATGTCAAAGACTTCATTCCAAAGGCCTGGGACGA
genomic: AACGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAACgtaagtaact ... gttcttgtagTGCTACCATCTGGCCAGATGTCAAAGACTTCATTCCAAAGGCCTGGGACGA
EST: gi|169074073|gb|FE481733.1|FE481733
EST:     AATGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAAC                         TGCTACCATCTGGCCAGATGTCAAAGATTTCATTCCAAAGGCCTGGGACGA
genomic: AACGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAACgtaagtaact ... gttcttgtagTGCTACCATCTGGCCAGATGTCAAAGACTTCATTCCAAAGGCCTGGGACGA

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: 22 (upstream exon), 34 (downstream exon)
Score: 5

TCCTATGCTCTTTGTTTCTTCTCTTCAAATTTATTCCCAAGGAGCTGATCAACGGGATACTCACGCTCTACTTCGTGGTTCTCGGAGTTCTTGCTCTAACgtaagtaact ... gttcttgtagTGCTACCATCTGGCCAGATGTCAAAGACTTCATTCCAAAGGCCTGGGACGAGAAAGAGATTTCTTTACATCTTCCGTATTTCACCA




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