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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcatctgttttgttcacttttttttctttgtgctgtgtgatcttagctctaagttttttctttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTCTGTGGCCAGTTTAAGCATTACAACATCACCACTGACGTGAAAGTCGACA

Basic information

species Selaginella moellendorffii
transcript EFJ12979
intron # 2
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|169033973|gb|FE442005.1|FE442005
EST:     ATTTCTACGACCACAAATTCACTGTCACGACCACAACCTCGTCTGGCTTG                         ACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
genomic: ATTTCTACGACCACAAGTTCACTGTCACGACCACAACCTCGTCTGGCTTGgtaagtttca ... ttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
EST: gi|169072840|gb|FE482312.1|FE482312
EST:     ATTTCTACGACCACAAATTCACTGTCACGACCACAACCTCGTCTGGCTTG                         ACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
genomic: ATTTCTACGACCACAAGTTCACTGTCACGACCACAACCTCGTCTGGCTTGgtaagtttca ... ttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
EST: gi|169068045|gb|FE476412.1|FE476412
EST:     ATTTCTACGACCACAAATTCACTGTCACGACCACAACCTCGTCTGGCTTG                         ACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
genomic: ATTTCTACGACCACAAGTTCACTGTCACGACCACAACCTCGTCTGGCTTGgtaagtttca ... ttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
EST: gi|169062435|gb|FE469494.1|FE469494
EST:     ATTTCTACGACCACAAATTCACTGTCACGACCACAACCTCGTCTGGCTTG                         ACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
genomic: ATTTCTACGACCACAAGTTCACTGTCACGACCACAACCTCGTCTGGCTTGgtaagtttca ... ttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
EST: gi|169077603|gb|FE484865.1|FE484865
EST:     ATTTCTACGACCACAAATTCACTGTCACGACCACAACCTCGTCTGGCTTG                         ACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
genomic: ATTTCTACGACCACAAGTTCACTGTCACGACCACAACCTCGTCTGGCTTGgtaagtttca ... ttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
EST: gi|169114546|gb|FE516616.1|FE516616
EST:     ATTTCTACGACCACAAATTCACTGTCACGACCACAACCTCGTCTGGCTTG                         ACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC
genomic: ATTTCTACGACCACAAGTTCACTGTCACGACCACAACCTCGTCTGGCTTGgtaagtttca ... ttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTC

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: 34 (upstream exon), 33 (downstream exon)
Score: 22

ACCTCCTTAACAAGGACTATTTCTACGACCACAAGTTCACTGTCACGACCACAACCTCGTCTGGCTTGgtaagtttca ... ttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTCTGTGGCCAGTTTAAGCATTACAACATCACCACTGACGTGAAAGTCGACA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttttttctttgtgctgtgtgatcttagctctaagttttttctttctctgtagACGTTCACCTCGACTGGAACAAGGAAAGGCGAGTCTCTGGGAGGGGAGCTCTGTGGCCAGTTTAAGCATTACAACATCACCACTGACGTGAAAGTCGACA
                              ctctaagttttttctt  CT-rich tract
                                 taagttttttcttt  TA-rich tract