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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagagtattttctacatttcgtgaacatatttctcaaagcctcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCAGGCGAGGCACCGCTCCATTCCGACAGCACGGACAAGACGTTCACCATCA

Basic information

species Selaginella moellendorffii
transcript EFJ16329
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|169045935|gb|FE451752.1|FE451752
EST:     GGCA-TTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: GGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169039372|gb|FE447240.1|FE447240
EST:     TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169108315|gb|FE511960.1|FE511960
EST:     TTGGCA-TTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169102043|gb|FE505747.1|FE505747
EST:     TAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169113223|gb|FE515496.1|FE515496
EST:     TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169045936|gb|FE451753.1|FE451753
EST:     GCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: GCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169115326|gb|FE517029.1|FE517029
EST:     TGGCA-TTGTTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TGGCATTTG-TTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169108015|gb|FE513298.1|FE513298
EST:     TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169066175|gb|FE475168.1|FE475168
EST:     TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169108316|gb|FE511961.1|FE511961
EST:     TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: TTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
EST: gi|169075796|gb|FE482793.1|FE482793
EST:     ACCAGAAGTTGGTGTTAGAATCCCTGGAG                         AAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA
genomic: ACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCA

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: 36

GAATTTAGACCGGTTCCAAACAGGAAGCAGATTGGCATTTGTTTCAAGGCGGACCAGAAGTTGGTGTTAGAATCCCTGGAGgtagagtatt ... tcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCAGGCGAGGCACCGCTCCATTCCGACAGCACGGACAAGACGTTCACCATCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagagtattttctacatttcgtgaacatatttctcaaagcctcttttgcagAAACTTAGCAGTGAAGAGGTAGTAGAAATGGTGGCAAAGTTGGAATCCGCAGGCGAGGCACCGCTCCATTCCGACAGCACGGACAAGACGTTCACCATCA
                                             cctcttttgc  CT-rich tract
         tattttctacattt  TA-rich tract