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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcttgtttaatactttcaattgcggtgtgtttgttgctagttgcctaattgatgttttcttcttctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGTGCACCGCTCATTGCCACGCTTCCATTAGAG

Basic information

species Selaginella moellendorffii
transcript EFJ27687
intron # 3
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|169064651|gb|FE471382.1|FE471382
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
EST: gi|169067518|gb|FE475260.1|FE475260
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
EST: gi|169071278|gb|FE478410.1|FE478410
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
EST: gi|169044047|gb|FE451633.1|FE451633
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
EST: gi|169112908|gb|FE514660.1|FE514660
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
EST: gi|169039922|gb|FE447608.1|FE447608
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
EST: gi|169102324|gb|FE506548.1|FE506548
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
EST: gi|169112110|gb|FE513453.1|FE513453
EST:     TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAG                         GTCAAGACGGCTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT
genomic: TTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGT

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: 32 (upstream exon), 32 (downstream exon)
Score: 34

CGACAGTGAGTTCTACCTTTCGCTGGTGTCACATCGTCTTGGTGTGGAGATTAGTTTTTCTGAGTGTGGAGGCATCGAGATCGAGGAAAACTGGGAAAAGgtagcttgtt ... tctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGTGCACCGCTCATTGCCACGCTTCCATTAGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcggtgtgtttgttgctagttgcctaattgatgttttcttcttctttcccagGTCAAGACGGTTTTCGTGCCTACAGAACAGCCTTTGACTGCGGAAACTTGTGCACCGCTCATTGCCACGCTTCCATTAGAG
                              ttgatgttttcttctt  CT-rich tract
                           taattgat  TA-rich tract