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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagggctcgtctttgcgatcggttttgcttacattctcgtttccttctcgcagCTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTATTGCTCGCTCCAGTGTTACAAG

Basic information

species Selaginella moellendorffii
transcript EFJ07159
intron # 1
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|169070903|gb|FE477346.1|FE477346
EST:     AAGGAAATGGCGCGTCTAGTGTGTCGCAT                         CTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTA
genomic: AAGGAAATGGCGCGTCTAGTGTGTCGCATgtaagggctc ... cttctcgcagCTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTA
EST: gi|169064046|gb|FE472233.1|FE472233
EST:     TGGGGTTTAGGGTTCTTGGGGAAGGAAATGGCGCGTCTAGTGTGTCGCAT                         CTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTA
genomic: TGGGGTTTAGGGTTCTTGGGGAAGGAAATGGCGCGTCTAGTGTGTCGCATgtaagggctc ... cttctcgcagCTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTA
EST: gi|169069997|gb|FE476466.1|FE476466
EST:     TGGGGTTTAGGGTTCTTGGGGAAGGAAATGGCGCGTCTAGTGTGTCGCAT                         CTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTA
genomic: TGGGGTTTAGGGTTCTTGGGGAAGGAAATGGCGCGTCTAGTGTGTCGCATgtaagggctc ... cttctcgcagCTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTA

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), 34 (downstream exon)
Score: 5

ATATTTGGGGTTTAGGGTTCTTGGGGAAGGAAATGGCGCGTCTAGTGTGTCGCATgtaagggctc ... cttctcgcagCTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTATTGCTCGCTCCAGTGTTACAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagggctcgtctttgcgatcggttttgcttacattctcgtttccttctcgcagCTGCCAGAAGCAGTACGCGAATTACACATGCCCCCGCTGCAATCTTCGCTATTGCTCGCTCCAGTGTTACAAG
                           tgcttac  putative branch site (score: 5)
                        ttttgcttacattctc  CT-rich tract
                              ttacatt  TA-rich tract