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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTCCCGCCATTAAATCATGGCCGAGATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacctgtaccactttgctagcagttacttgaaacaagtgtccaaatcactttgaatatgggttcaaatattctgtagtttctactagctctgtttgccacaaatgattacatatagtcttacgatgggtaactctgtaactttgtgaacag

Basic information

species Physcomitrella patens
transcript PP1S173_136V6.1
intron # 16
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|162195982|gb|FC372166.1|FC372166
EST:     GAGTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCG                         GTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
genomic: GATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
EST: gi|162190104|gb|FC365846.1|FC365846
EST:     GAGTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCG                         GTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
genomic: GATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
EST: gi|37834281|gb|BJ592293.1|BJ592293
EST:     GATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCG                         GTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
genomic: GATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
EST: gi|37852520|gb|BJ610528.1|BJ610528
EST:     AGGTCTTCCATCTCG                         GTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
genomic: AGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
EST: gi|18341657|gb|BJ173692.1|BJ173692
EST:     GATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCG                         GTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
genomic: GATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
EST: gi|162245434|gb|FC421336.1|FC421336
EST:     GAGTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCG                         GTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
genomic: GATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATC
EST: gi|162241844|gb|FC418099.1|FC418099
EST:     AGTCAGTGATACCTGCTANCAA-CCCTTCCATACCAGGTCTTCCATCTCG                         GTCTCACATGAAAACTTCTGTCGTACCC
genomic: ATTCAGTGATACCTGCTA-CAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCC

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: 34 (upstream exon), 31 (downstream exon)
Score: 13

CTGTCCCGCCATTAAATCATGGCCGAGATTCAGTGATACCTGCTACAAACCCTTCCATACCAGGTCTTCCATCTCGgtgtgtacct ... ttgtgaacagGTCTCACATGAAAACTTCTGTCGTACCCTCCATTCCCACTTATACCAGATCTCAGATGTCGACTGGAGAAACCTACCCGCAGGCTTTTCATGCATACCCT




<











<


<