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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtttgtaataattctggcgccaacatctcacatctaaattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGAAAGTCTTCACTACGGGCCTTGTAAAAATCTGGTGAACGATTGTTGTTGT

Basic information

species Selaginella moellendorffii
transcript EFJ11673
intron # 12
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|169057386|gb|FE466821.1|FE466821
EST:     AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAG                         GTCCTAGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
genomic: AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
EST: gi|169038887|gb|FE449604.1|FE449604
EST:     AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAG                         GTCCTAGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
genomic: AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
EST: gi|169070710|gb|FE477309.1|FE477309
EST:     AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAG                         GTCCTAGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
genomic: AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
EST: gi|169093396|gb|FE492700.1|FE492700
EST:     AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAG                         GTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
genomic: AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
EST: gi|169092637|gb|FE493657.1|FE493657
EST:     AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAG                         GTCCTAGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
genomic: AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
EST: gi|169038296|gb|FE445308.1|FE445308
EST:     AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAG                         GTCCTAGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
genomic: AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
EST: gi|169083494|gb|FE491925.1|FE491925
EST:     AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAG                         GTCCTAGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA
genomic: AGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGA

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), 35 (downstream exon)
Score: 66

AGCTACGACCCAACCACACACTTTGAGACTACAGTGCAAGATGTTCTTGCCATGTACACCCGCATAACCGGAAAGgtatggtttg ... aattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGAAAGTCTTCACTACGGGCCTTGTAAAAATCTGGTGAACGATTGTTGTTGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatggtttgtaataattctggcgccaacatctcacatctaaattccgcagGTCCTGGACTTGAGTGTGGACTTGAGTGCCGCCAGTGCTGCGGACGAGTGAAAGTCTTCACTACGGGCCTTGTAAAAATCTGGTGAACGATTGTTGTTGT
                                        atctaaa  putative branch site (score: 66)
              tttgtaataattct  TA-rich tract