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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctttgtctttcgcttccttcatgcatttagcatttactttccttgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACATCTACACTCGAAAGGCATTGTACATAGGGATTTAAAGCCTGAAAATATT

Basic information

species Selaginella moellendorffii
transcript EFJ13401
intron # 2
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|169056048|gb|FE465600.1|FE465600
EST:     ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAG                         CGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACA
genomic: ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAGgtacctttgt ... tgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACA
EST: gi|169076822|gb|FE485865.1|FE485865
EST:     ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAG                         CGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACA
genomic: ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAGgtacctttgt ... tgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACA
EST: gi|169080058|gb|FE487918.1|FE487918
EST:     ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAG                         CGAGGATCTCTGCCGCGTCTATGCGGC
genomic: ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAGgtacctttgt ... tgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGC
EST: gi|169080057|gb|FE487917.1|FE487917
EST:     CGCCAGGGGACTTTCAG                         CGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACA
genomic: CGCCAGGGGACTTTCAGgtacctttgt ... tgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACA
EST: gi|169046364|gb|FE456965.1|FE456965
EST:     ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAG                         CGAGGATCTCTGCCGCGTCTATGCGGC
genomic: ATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAGgtacctttgt ... tgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGC

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: 95

ACCAAGACGAAGCTGTATCTCATTCTGGATTTCATAAATGGCGGCCATCTTTTCTTCCAGCTCTATCGCCAGGGGACTTTCAGgtacctttgt ... tgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACATCTACACTCGAAAGGCATTGTACATAGGGATTTAAAGCCTGAAAATATT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctttgtctttcgcttccttcatgcatttagcatttactttccttgcctggcagCGAGGATCTCTGCCGCGTCTATGCGGCAGAGATTGTGAGCGCAGTGGCACATCTACACTCGAAAGGCATTGTACATAGGGATTTAAAGCCTGAAAATATT
                                  tttactttccttgcct  CT-rich tract
                                 atttacttt  TA-rich tract