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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcacagttctatatcgttctatcgcatttcttgattcttttatttgcaagGACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAGGAACTAAGCAGCACGCTCATGTGGTCGACACCATTGTCATGGCCAATCT

Basic information

species Selaginella moellendorffii
transcript EFJ07070
intron # 24
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|169072706|gb|FE481320.1|FE481320
EST:     TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAG                         GACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG
genomic: TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAGgtattcacag ... tatttgcaagGACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG
EST: gi|169099839|gb|FE500844.1|FE500844
EST:     TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAG                         GACACTGTTATGAGCACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG
genomic: TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAGgtattcacag ... tatttgcaagGACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG
EST: gi|169031012|gb|FE439840.1|FE439840
EST:     TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAG                         GACACTGTTATGAGCACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG
genomic: TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAGgtattcacag ... tatttgcaagGACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG
EST: gi|169114730|gb|FE516927.1|FE516927
EST:     TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAG                         GACACTGTTATGAGCACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG
genomic: TGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAGgtattcacag ... tatttgcaagGACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAG

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: 21 (upstream exon), 33 (downstream exon)
Score: 5

TCATGACCTGGATAATATTGTTTTGGAAAAGCTCGACGATGAAAGAACTTTGCATGCCGTTTTTGAGCTTGAAGCTCTTATGATAACAGgtattcacag ... tatttgcaagGACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAGGAACTAAGCAGCACGCTCATGTGGTCGACACCATTGTCATGGCCAATCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattcacagttctatatcgttctatcgcatttcttgattcttttatttgcaagGACACTGTTATGAACACAATGAGCCGCCTCGTGGACTTCAACTTATCTTAGGAACTAAGCAGCACGCTCATGTGGTCGACACCATTGTCATGGCCAATCT
                                 tcttgat  putative branch site (score: 5)
                               tttcttgattctttt  CT-rich tract
                                   ttgattcttttattt  TA-rich tract