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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgcgaagaaatcaagcttttcaatattttcttcttcgtttacatctcagGTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCTGTCCGGAGTATTGTGAGCAACGAAGGTTTCCGGGGCCTCTATGCG

Basic information

species Selaginella moellendorffii
transcript EFJ30292
intron # 6
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|169053905|gb|FE460996.1|FE460996
EST:     CTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAG                         GTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT
genomic: CTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAGgtaacgcgaa ... tacatctcagGTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT
EST: gi|169039479|gb|FE447295.1|FE447295
EST:     CTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAG                         GTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT
genomic: CTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAGgtaacgcgaa ... tacatctcagGTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT
EST: gi|169039478|gb|FE447294.1|FE447294
EST:     CTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAG                         GTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT
genomic: CTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAGgtaacgcgaa ... tacatctcagGTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT
EST: gi|169053904|gb|FE460995.1|FE460995
EST:     CTGGTGCTACCGGAGGACTGGCAGCATCTCTCGTCCGTGTGCCCACCGAG                         GTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT
genomic: CTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAGgtaacgcgaa ... tacatctcagGTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCT

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: 26 (upstream exon), 30 (downstream exon)
Score: 5

ACGGCTGGTGCTACCGGAGGACTTGCAGCATCTCTCGTCCGTGTGCCCACCGAGgtaacgcgaa ... tacatctcagGTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCTGTCCGGAGTATTGTGAGCAACGAAGGTTTCCGGGGCCTCTATGCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaacgcgaagaaatcaagcttttcaatattttcttcttcgtttacatctcagGTGGTGAAACAAAGGATGCAAACTCGTGAGTTTCCAAGGGCTCACATAGCTGTCCGGAGTATTGTGAGCAACGAAGGTTTCCGGGGCCTCTATGCG
                                ttttcttcttcgttta  CT-rich tract
                      ttttcaatattttctt  TA-rich tract