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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgctacacattttcccatcatcttaagcaccatctttactttcagGAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGATATACTCATCGCCGAGTACCAGAGAAAGCTCGAAAGCATCCAGGAATTC

Basic information

species Selaginella moellendorffii
transcript EFJ20638
intron # 28
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|169099051|gb|FE501772.1|FE501772
EST:     CCCATGAAAGCAGCGTCCTTGAGCCGATGGAAACGAGATGACTTTTTGCC                         GAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGA
genomic: CCCATGAAAGCAGCGTCCTTGAGCCGATGGAAACGAGATGACTTTTTGCCgtgagttgct ... ttactttcagGAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGA
EST: gi|169064420|gb|FE472087.1|FE472087
EST:     CCCATGAAAGCAGCGTCCTTGAGCCGATGGAAACGAGATGACTTTTTGCC                         GAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGA
genomic: CCCATGAAAGCAGCGTCCTTGAGCCGATGGAAACGAGATGACTTTTTGCCgtgagttgct ... ttactttcagGAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGA
EST: gi|169104104|gb|FE505117.1|FE505117
EST:     CCCATGAAAGCAGCGTCCTTGAGCCGATGGAAACGAGATGACTTTTTGCC                         GAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGA
genomic: CCCATGAAAGCAGCGTCCTTGAGCCGATGGAAACGAGATGACTTTTTGCCgtgagttgct ... ttactttcagGAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGA

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: 34 (upstream exon), 31 (downstream exon)
Score: 29

TGAAAGAACTCCCAGGCTTGCCTCCAACGGGCTTGGATGCGGGTGACAGCCCCATGAAAGCAGCGTCCTTGAGCCGATGGAAACGAGATGACTTTTTGCCgtgagttgct ... ttactttcagGAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGATATACTCATCGCCGAGTACCAGAGAAAGCTCGAAAGCATCCAGGAATTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgagttgctacacattttcccatcatcttaagcaccatctttactttcagGAGCGGGAGACACTGCCAGGAACTAGATTCTTTCCGGAGATACGTTGGTGATATACTCATCGCCGAGTACCAGAGAAAGCTCGAAAGCATCCAGGAATTC
                                          ccatctttactttc  CT-rich tract
                                            tttacttt  TA-rich tract