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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCGACCATCAACTGCTAACTCTCAAAGAGCTGCTGCAATGGCAGCTCTATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagattttgtcacttttggttgcttaatttatgatagaacacaacctggtgaccgctgtaatgctcatctcactaaagctgtgatgcagatctgttgc...

Basic information

species Physcomitrella patens
transcript PP1S299_6V6.1
intron # 20
splice site 5'
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|162269689|gb|FC445609.1|FC445609
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162195995|gb|FC372686.1|FC372686
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATAGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|67570136|gb|BJ942960.1|BJ942960
EST:     CCTCTTC-GTTTCAG                         TTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: CCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162174320|gb|FC350391.1|FC350391
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATAGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162177371|gb|FC352904.1|FC352904
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATAGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162202148|gb|FC377536.1|FC377536
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATAGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162269688|gb|FC445608.1|FC445608
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162195994|gb|FC372685.1|FC372685
EST:     ATCGTTAATGTTT-GTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATAGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162174319|gb|FC350390.1|FC350390
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTNTCAG                         TTGATTCTGATTGGATAGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
EST: gi|162202149|gb|FC377537.1|FC377537
EST:     ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAG                         TTGATTCTGATTGGATAGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT
genomic: ATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCAT

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: 13 (upstream exon), 23 (downstream exon)
Score: 1

CATCGACCATCAACTGCTAACTCTCAAAGAGCTGCTGCAATGGCAGCTCTATCGTTAATGTTTGGTACGAAAAAAGCAGGATTAGCCTCTTCAGTTTCAGgtgagatttt ... gcttttgcagTTGATTCTGATTGGATCGCTGGAAGTTCGCCGTTCACGAAAATGGAGGCATCAGGGGATACAGAATCTGTAACAAGCTCTAAGTCTGAAGATGGAGGGGA




<











<


<