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'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAAGGCTGCCCGTCTGGACGTCGCTACAAAGATCGCCATTGATTCTAAAGTAGATTATCCAGCCGCATGCAACGCTATGgtacagaattccgtttcacatgcatttcagttactgaccgatcgcttattttctttccctttttttctaatgcag

Basic information

species Selaginella moellendorffii
transcript EFJ17662
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ17662 (Selaginella moellendorffii), 5'ss of exon 14
lower sequence: PP1S22_40V6.1 (Physcomitrella patens), 5'ss of exon 14
--------------------ATAAGGCTGCCCGTCTGGACGTCGCTACAAAGATCGCCATTGATTCTAAAGTAGATTATCCAGCCGCATGCAACGCTATGgtacagaat-----tccgtttcacatgcatttcagttactgaccgatcgcttattttctttccctttttttctaatgcag--------------------
                    ||| ||||||   ||| ||    || |  || ||||  ||||| || |||||||| |||||||| |||||||||||| |||||     |     |  |||   | | || || | | | ||   ||   |       |    |  |||    | || |||                    
AGTCTGCCATGTCTATGTTGATACGGCTGCTGATCTAGAGAAAGCCAAGAATATCGTGATTGACTCAAAAGTAGACTATCCAGCTGCATGCAACGCTCTGgtatgctgtggttatgagttagcctttcaatttattcattgtgtgactcccatggggcaacgctgtttggattgattcagattaggggattgatgtggat
















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|169030629|gb|FE439561.1|FE439561
EST:     GATCGCCATTGATTCTAAAGTAGATTATCCAGCCGCATGC-ACNGCTATG                         GAAACTCTACTGGTCCATGAGGATCTAGTTGATACTGGAGGCTTGGAGAC
genomic: GATCGCCATTGATTCTAAAGTAGATTATCCAGCCGCATGCAAC-GCTATGgtacagaatt ... tctaatgcagGAAACTCTACTGGTCCATGAGGATCTAGTTGATACTGGAGGCTTGGAGAC




















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: 25 (upstream exon), 27 (downstream exon)
Score: 6

ATAAGGCTGCCCGTCTGGACGTCGCTACAAAGATCGCCATTGATTCTAAAGTAGATTATCCAGCCGCATGCAACGCTATGgtacagaatt ... tctaatgcagGAAACTCTACTGGTCCATGAGGATCTAGTTGATACTGGAGGCTTGGAGACGCTAGCGTCCGCATTGAAGTCTGCAG




<











<


<