Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacgttcataaacttgttttttctctggcctgagatttcatttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACACAA

Basic information

species Selaginella moellendorffii
transcript EFJ14843
intron # 16
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|169062983|gb|FE472941.1|FE472941
EST:     CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGG                         GAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
genomic: CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
EST: gi|169054409|gb|FE462102.1|FE462102
EST:     CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGG                         GAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
genomic: CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
EST: gi|169108716|gb|FE510515.1|FE510515
EST:     CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGG                         GAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
genomic: CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
EST: gi|169063658|gb|FE471764.1|FE471764
EST:     CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGG                         GAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
genomic: CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
EST: gi|169063659|gb|FE471765.1|FE471765
EST:     CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGG                         GAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
genomic: CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
EST: gi|169105269|gb|FE506371.1|FE506371
EST:     CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGG                         GAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
genomic: CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
EST: gi|169108715|gb|FE510514.1|FE510514
EST:     CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGG                         GAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC
genomic: CTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACAC

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: 33 (upstream exon), 35 (downstream exon)
Score: 20

TCGTTAGTTCTCCTGCCACTTGCCATCGCCAATGCGCTCTCATCTAAAGTCCTTGGAGGgtatgacgtt ... ttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACACAA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatgacgttcataaacttgttttttctctggcctgagatttcatttttgtccagGAAACCTTTATTCGACGAGTTCCTTTTGCTCCTTGTCTACTGTGCATACACAA
                                       tttcatttttgtcc  CT-rich tract
           ataaacttgtttttt  TA-rich tract