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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttcacagttggttctctcggattgtcctaaactttgttctatattgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCAGGGGCAGGACTCTCACAAGGCAAGCACGGAGTTCGACACGACCGACAAG

Basic information

species Selaginella moellendorffii
transcript EFJ30452
intron # 4
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|70671032|gb|DN839609.1|DN839609
EST:     TGGCATCCAGCTCGCGTTTCGTTCACGGTTGCCAGGGGCGGTCAGAACGG                         ATACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCC
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169115638|gb|FE517848.1|FE517848
EST:     TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGG                         TTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169115637|gb|FE517847.1|FE517847
EST:     TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGG                         TTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169063851|gb|FE471206.1|FE471206
EST:     TGGCATCCAGCTCGCGTTTCGTTCACGGTTGCCAGGGCCGGTCAGAACGG                         ATACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169105156|gb|FE504828.1|FE504828
EST:     TGGCATCCAGCTCGCGTTTCGTTCACGGTTGCCAGGGCCGGTCAGAACGG                         ATACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169074640|gb|FE481195.1|FE481195
EST:     TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGG                         TTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169105157|gb|FE504829.1|FE504829
EST:     TGGCATCCAGCTCGCGTTTCGTTCACGGTTGCCAGGGCCGGTCAGAACGG                         ATACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169062674|gb|FE470344.1|FE470344
EST:     TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGG                         TTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169054886|gb|FE463490.1|FE463490
EST:     TGGCATCCAGCTCGCGTTTCGTTCACGGTTGCCAGGGCCGGTCAGAACGG                         ATACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
EST: gi|169099959|gb|FE503447.1|FE503447
EST:     TGGCATCCAGCTCGCGTTTCGTTCACGGTTGCCAGGGCCGGTCAGAACGG                         ATACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA
genomic: TGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCA

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), 34 (downstream exon)
Score: 34

TGCCCCGGAAGACTCACAGGGGTCTACGAAAGGTTGCATGTATCGGAGCGTGGCATCCAGCTCGCGTTTCCTTCACGGTTGCCAGGGCCGGTCAGAACGGgtaagttttc ... attgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCAGGGGCAGGACTCTCACAAGGCAAGCACGGAGTTCGACACGACCGACAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttcacagttggttctctcggattgtcctaaactttgttctatattgtcgcagTTACCATCACCGTACCGAGATGAACAAGAAGATCTACAAGATCGGCAAGCAGGGGCAGGACTCTCACAAGGCAAGCACGGAGTTCGACACGACCGACAAG
                           tcctaaa  putative branch site (score: 34)
                                       ttctatatt  TA-rich tract