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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtgtgagaattcaagcttgcaagcaagaatctcttgtttttgcccttgtttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAAAATCGCCAACATTTTCGAAAGTAGTGCATCGCCTCCCAGTTCCGCATGT

Basic information

species Selaginella moellendorffii
transcript EFJ11187
intron # 1
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|169111355|gb|FE510904.1|FE510904
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169035104|gb|FE444900.1|FE444900
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169059197|gb|FE467199.1|FE467199
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169070384|gb|FE479349.1|FE479349
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169103453|gb|FE507573.1|FE507573
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169099417|gb|FE501007.1|FE501007
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169057338|gb|FE466799.1|FE466799
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169026696|gb|FE433982.1|FE433982
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
EST: gi|169069404|gb|FE479487.1|FE479487
EST:     TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAG                         GAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA
genomic: TACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAA

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), 35 (downstream exon)
Score: 74

GGAGGAGGATGCTGCGCTGTTGGTCCCGGCTATGGAACTCCATTGGACGCTACAAAGGGGCCGCGAGAATCTTTGCTCTATGTCACGGCGGTTTACACAGgtatggtgtg ... tttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAAAATCGCCAACATTTTCGAAAGTAGTGCATCGCCTCCCAGTTCCGCATGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagaattcaagcttgcaagcaagaatctcttgtttttgcccttgtttcgcgaagGAACTGGGCGATCTTTGCCGGATTACCTGGCTACGGTGGATGTGGATCCAAAATCGCCAACATTTTCGAAAGTAGTGCATCGCCTCCCAGTTCCGCATGT
                          tctcttgtttttgccc  CT-rich tract
                              ttgttttt  TA-rich tract