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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatttgcttttgaagatttgtacaagttcattctcttccttgagttgctttagtgttcaatgaattggtcggtacttagcatgggtgtattgttgacatctacccttcactgcagAAAGAGGGACAATTGACACTTCGTGACCTGAAGCGGTGTAAATTATCTGGGAATTTTTTCAATATTCTCTTCAACCTGAACAAGTTCGTAGCATTTGAGA

Basic information

species Physcomitrella patens
transcript PP1S34_411V6.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S34_411V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: LOC_Os02g09840.1 (Oryza sativa), 3'ss of exon 9
gtaagcatttgcttttgaagatttgtacaagttcattctcttccttgagttgctttagtgttcaatgaattggtcggtacttagcatgggtgtattgttgacatctacccttcactgcagAAAGAGGGACAATTGACACTTCGTGACCTGAAGCGGTGTAAATTATCTGGGAATTTTTTCAATATTCTCTTCAACCTGAACAAGTTCGTAGCATTTGAGA
                                 ||  |  ||   ||  || || |  |||| | |   ||  | ||   ||      | | ||||      || |   |||   | ||||| |||      || ||| |    ||| |     |||| ||| | |||||| |||| ||||| |||||||||||||||||||| ||  | || |||||  
----------------------------gtaaccaaacatttttctgtatttctattctgtt-actaggttcttaggctttttaagctgatatattta----atttgttctt-gtttcagAATGAGACCTTTTTTACATTAAAAGACTTCCGAAGGTGCAAACTGTCTGGGCATTTCTTCAACATTCTCTTCAACCTGAACAAATTTATGGCCTTTGAAG

upper sequence: PP1S34_411V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: GRMZM2G104254_T01 (Zea mays), 3'ss of exon 6
gtaagcatttgcttttgaagatttgtacaagttcattctcttccttgagttgctttagtgttcaatgaat---tggtcggtacttagcatgggtgtattgttgacatctacccttcactgcagAAAGAGGGACAATTGACACTTCGTGACCTGAAGCGGTGTAAATTATCTGGGAATTTTTTCAATATTCTCTTCAACCTGAACAAGTTCGTAGCATTTGAGA
                                                       |||  |   ||  ||    ||     | ||    ||||    ||| | ||   |   | |  || ||||| ||| |  | || || || || ||| | || ||||||||| | || || ||| | ||||||||||| ||||| |||||||||||| | |||||||| |
------------------------------------------------------gtagattctcatacatatccggcaaacattttatctgggc---ttgataactatttttcctttctacagAATGAGAGCTATTTTACTCTACGGGACTTAAAACGGTGTAAACTCTCAGGAAATATATTCAATATTCTTTTCAATCTGAACAAGTTCATGGCATTTGAAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattggtcggtacttagcatgggtgtattgttgacatctacccttcactgcagAAAGAGGGACAATTGACACTTCGTGACCTGAAGCGGTGTAAATTATCTGGGAATTTTTTCAATATTCTCTTCAACCTGAACAAGTTCGTAGCATTTGAGA
                              tgttgac  putative branch site (score: 3)
                                      tctacccttc  CT-rich tract
                           tattgtt  TA-rich tract