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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcgcatcttctttttctgctggtcatttcggcttgatatttaaactacagTGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGAAGGTCCGCATTTATATCAG

Basic information

species Selaginella moellendorffii
transcript EFJ19637
intron # 6
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|169115599|gb|FE517809.1|FE517809
EST:     CAACTGGTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGG                         TGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA
genomic: CAACTGGTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGGgtatgttcgc ... taaactacagTGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA
EST: gi|169109748|gb|FE511819.1|FE511819
EST:     CAACTGGTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGG                         TGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA
genomic: CAACTGGTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGGgtatgttcgc ... taaactacagTGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA
EST: gi|169108705|gb|FE510504.1|FE510504
EST:     GTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGG                         TGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA
genomic: GTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGGgtatgttcgc ... taaactacagTGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA
EST: gi|169115598|gb|FE517808.1|FE517808
EST:     CAACTGGTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGG                         TGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA
genomic: CAACTGGTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGGgtatgttcgc ... taaactacagTGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGA

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), 35 (downstream exon)
Score: 44

GAACACATTCCTGTCTCCCAACTGGTCAGAGAAATCGCGGCTGTCATGCAGGAATTCACGCAGTCGGGgtatgttcgc ... taaactacagTGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGAAGGTCCGCATTTATATCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgttcgcatcttctttttctgctggtcatttcggcttgatatttaaactacagTGGTGTACGTCCATTTGGAGTGTCGTTGCTTGTCGCCGGCTTCGATGACGAAGGTCCGCATTTATATCAG
                                   gcttgat  putative branch site (score: 44)
                                     ttgatatttaaacta  TA-rich tract