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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtctgggaaaaaaaagcgagggatgtgttgctaatgtatcattgcttttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCGGTCATGGTTTCAGGACGGCAAGCACCCTTCTCGAGATATAAGATTGGGA

Basic information

species Selaginella moellendorffii
transcript EFJ34464
intron # 11
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|169023498|gb|FE431409.1|FE431409
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
EST: gi|169069772|gb|FE477489.1|FE477489
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
EST: gi|169078969|gb|FE489689.1|FE489689
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
EST: gi|169034815|gb|FE444004.1|FE444004
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
EST: gi|169078280|gb|FE488883.1|FE488883
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAACGCACCACTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
EST: gi|169059536|gb|FE468562.1|FE468562
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
EST: gi|169067063|gb|FE476014.1|FE476014
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG
EST: gi|169078279|gb|FE488882.1|FE488882
EST:     TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTG                         GCCTGGACACTGTGATACTTGAGAGACCAGGGAACGCACCACTGCCTAGCG
genomic: TACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCG

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: 33 (upstream exon), 33 (downstream exon)
Score: 32

AGTTACACTGAAATCTTCCTTTCGGTGGGTGCCGACGAGCCCTCTCAGATTACTTTCGCCACGGACGTGCTGGCTGAAGCTGTTGCGGCTAAAGAAGCTGgtaatgtctg ... ttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCGGTCATGGTTTCAGGACGGCAAGCACCCTTCTCGAGATATAAGATTGGGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgggaaaaaaaagcgagggatgtgttgctaatgtatcattgcttttgttgccagGCCTGGACACTGTGATACTTGAGAGACCAGGGAATGCACCGCTGCCTAGCGGTCATGGTTTCAGGACGGCAAGCACCCTTCTCGAGATATAAGATTGGGA
                          tgctaat  putative branch site (score: 32)
                                       ttgctttt  putative PPT
     aaaaaaaa  TA-rich tract