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'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcttcccagtttttctaacacttacaaaatctacaaccttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAGCTCGCCGACAATGACAAAGATCTATTTCCACTTCTAGAATGTTTTACGT

Basic information

species Selaginella moellendorffii
transcript EFJ11805
intron # 15
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|169050437|gb|FE459570.1|FE459570
EST:     ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAG                         CCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
genomic: ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
EST: gi|169077651|gb|FE484913.1|FE484913
EST:     ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAG                         CCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
genomic: ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
EST: gi|169019859|gb|FE426946.1|FE426946
EST:     ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAG                         CCCAAGTATCTCAATATACTGATGC
genomic: ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCTCAATATACTGATGC
EST: gi|169065009|gb|FE475081.1|FE475081
EST:     ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAG                         CCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
genomic: ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
EST: gi|169081293|gb|FE489283.1|FE489283
EST:     ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAG                         CCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
genomic: ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
EST: gi|169080569|gb|FE490522.1|FE490522
EST:     ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAG                         CCCAAGTATCTNCA-TATACTGATGCCACCATTGATAGCAAAATGGCAACA
genomic: ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCT-CAATATACTGATGCCACCATTGATAGCAAAATGGCAACA
EST: gi|169042559|gb|FE451014.1|FE451014
EST:     ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAG                         CCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG
genomic: ACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAG

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: 31 (upstream exon), 29 (downstream exon)
Score: 11

CGCCGTAACCTACGAATTTTGTACGATGCCATCGGAACGCTAGCAGATGCAGTGGGTGGAGACCTTAATGAGgtttgcttcc ... accttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAGCTCGCCGACAATGACAAAGATCTATTTCCACTTCTAGAATGTTTTACGT




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgcttcccagtttttctaacacttacaaaatctacaaccttttcagCCCAAGTATCTCAATATACTGATGCCACCATTGATAGCAAAATGGCAACAGCTCGCCGACAATGACAAAGATCTATTTCCACTTCTAGAATGTTTTACGT
                                                   ccttttc  CT-rich tract
                   tttttctaa  TA-rich tract