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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatttataaacgtatgtctttttccaaagattctaaatgtgatctgcttgtgtctaccaccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGAGCGATGGTTGTCTCGGACAACGGCGGCAGCAAACCCAATTACTATCCGA

Basic information

species Selaginella moellendorffii
transcript EFJ21541
intron # 5
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|169078636|gb|FE487068.1|FE487068
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACNA-CCCATTGTGAAAGTC-AGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169078635|gb|FE487067.1|FE487067
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169061632|gb|FE469419.1|FE469419
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169033314|gb|FE441732.1|FE441732
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169100939|gb|FE500891.1|FE500891
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169033404|gb|FE442290.1|FE442290
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169018436|gb|FE427245.1|FE427245
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169033315|gb|FE441733.1|FE441733
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169095389|gb|FE497495.1|FE497495
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
EST: gi|169086910|gb|FE495119.1|FE495119
EST:     TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGAC                         GTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA
genomic: TTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGA

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: 22 (upstream exon), 32 (downstream exon)
Score: 4

TGTTCCTGGGATTGAGGCTTCCCCGGACCGTATACTCCAGTCCCGGCTCTTTGCTTACGACGACGCTGCTCGATACAGAATTGGGACAAACTTCCACGACgtaagaattt ... caccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGAGCGATGGTTGTCTCGGACAACGGCGGCAGCAAACCCAATTACTATCCGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtctttttccaaagattctaaatgtgatctgcttgtgtctaccaccatccagGTTCCGATCAACAAACCCATTGTGAAAGTCCAGACATATTCTCGAGATGGAGCGATGGTTGTCTCGGACAACGGCGGCAGCAAACCCAATTACTATCCGA
                  ttctaaa  putative branch site (score: 4)
                 attctaaat  TA-rich tract