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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT

Basic information

species Physcomitrella patens
transcript PP1S62_51V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os04g35100.1 (Oryza sativa), 3'ss of exon 3
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacat-atcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                                     |  ||   || |    | |||      |||      | ||| || | | |   | |   ||    |     | || || ||     ||     | |  ||||||| || ||||||||| ||||| ||||||||||||| ||||| ||||| |||||||||||||| || ||  | ||||  ||| |  ||||||||||||| 
---------------------------------------------------------------------acactgaatttacacatgtcaaacaacgatcaaatcgatgagattaacatgccaaagctttctgcctttctcgctattcatca---acacgtcacgcgtgcagAACGGCGTGCGAGGACTGATGCTGGACATGTACGACTTCCGCAACGACATCTGGCTCTGCCACTCCTTCGGCGGCGCCTGCCAGAACTTCACCGCATTC

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G078650_T02 (Zea mays), 3'ss of exon 2
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtc--tgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                                      | ||||| |  |   |    || |     |||   ||  | ||    |||    |   ||| | |  ||  |||  | |  ||   |  |   |    ||||||| || ||| | ||  ||||| ||||||||||||| ||||| |||||  ||||||||||||| || |   | ||| | ||| |  |||||||||| |||
-------------------------------------------------------------------aatgactctggttggcggtt--gctagacccgtgcagcgcgtagat----ttgcccccgcgtgaattctttgtccttcagctgagattgtcgcttcggtcgtgcagAACGGCGTGAGGGGTCTGATGCTGGACATGTACGACTTCCGCAACGACGTCTGGCTCTGCCACTCCTACGGCGGCATCTGCCAGAACTTCACCGCGTTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA01G39480.1 (Glycine max), 3'ss of exon 3
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                            |||||| |  |       |||  |   | |  |  |  ||   || |  | ||||       ||    |  ||    |   | |||| |||  |    |   ||| |  ||||||||||| |||||||||||||||| |||||||| |||  ||| |||||||||||||| ||||| ||||||||    |||| | ||||||| || |||
---------------------------------------------------------tagcttgat-gatgaagggaatcaagtgagtgatattaa--ttattattcgcatatat------gtatctatagtttacttatacatttgtttgatgg---atgttgttt--agAATGGAGTGAGAGGATTGATGTTGGATATGTACGACTTCGAGAATGATATCTGGCTCTGTCATTCATTTCGAGGACAATGCTTCAACTTCACTGCCTTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA11G05770.1 (Glycine max), 3'ss of exon 3
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                        | ||  |  || | |    |    | | |   ||| | |  |||   |   | || | |   |      |  ||||||   |  || |||| |||  ||   |   ||  |  ||||||||| | |||||||||||||||| |||||||| |||  ||| ||||||||||| || ||||| ||||||||    |||| | ||||||| ||||||
--------------------------------------------------------aggaaat--ttagtgatattaactattatatgcacataggtatttata-atttacttgtttct-----ttagtgattct--tattcatttgtttgatga---atgttgctt--agAATGGAGCGAGAGGATTGATGTTGGATATGTACGACTTCGAGAATGATATCTGGCTTTGTCATTCATTTCGAGGGCAATGCTTCAACTTCACTGCATTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA05G19250.1 (Glycine max), 3'ss of exon 3
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                    | ||  |   || |||  | |  || |   ||||||  |||  |  |||      | |  | | | |   |    ||| ||    || | ||||| || |    | | ||| |    ||||||||||| | ||| | |||||||| |||||||| |||| ||| |||||||||||||| ||||| ||||| ||    |||||| ||||||| ||||||
----------------------------------------------------gtatgtgtagtg-ttgttgccattgcttgcttttctt-cttaaattttgtttcttttatgttttggtagct-taattgttttttgtgatgttttgttttg---ttgataattt----agAATGGAGTGAGGGGACTCATGTTGGATATGTACGACTTCCAGAATGATATCTGGCTCTGTCATTCATTTCGCGGGCAATGCTACAACTTCACTGCATTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA02G11450.1 (Glycine max), 3'ss of exon 4
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgct--gacatatcgttgaatactgttgattccactgctct-----tttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                                                | || || |   || |  |  | ||||    |   |   |  |||  | |   ||  |  |||        || |||     |  |        |||||||||||| ||||| |||||| | |||||||| ||||||| ||| ||||| ||||| |||||||| ||| | |||   |||||| ||| ||| || |||
------------------------------------------------------------------------------gaaattatcccttgtgaatttaccaatgcgtaaaagaaatctaaaatgatttcagtttaagagcttcggaaccttaattatgctcacatttatctcgcagAATGGAGTACGAGGGTTGATGCTTGACATGTATGATTTCCAGAATGATATTTGGCTGTGCCATTCATTTGGTGGCCAGTGCTACAACTACACAGCTTTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA17G18740.1 (Glycine max), 3'ss of exon 3
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                       |         |||||     ||| | | |||| ||  |||| ||      |||  | | ||||     ||   |  ||   || |  | ||   |||  |  |||    |    |   | |||| |||      |   |||  |  ||||||||||  | ||| ||||||||||||||||||| |||| ||| ||||| |||||||| || || ||||| ||    |||| | ||||||| ||||||
-----------------------gtatgtgtagtttggcttctttgcaagttgca-aatgcttgctt-----ttcttcttaatttttgtttttcttg--tgttttggtagctta--attgttttttgtgatgtttcttatgcgtttgtttg------tttgatgg-tatagAATGGAGTTAGGGGACTGATGTTGGACATGTACGACTTCCAGAATGATATATGGCTCTGTCACTCATTTCGCGGGCAATGCTTCAACTTCACTGCATTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: AT1G49740.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                                                |  ||||  | ||  ||    || |  | |||| |  || |      |   ||  | || | ||    |||||   |||       |||||||||| ||  |||| || ||| | |||||||| || ||||  |||||||||||||| |||||||||||    ||    || | | | |||||||| |||
-------------------------------------------------------------------------gtaaacaaagtttcaaatttttagtaaacccttttaacatttttttca------taagtttgaatgttttt---gttgga---ttat------tgcagAATGGTGTAAGAGGGTTTATGCTCGACATGTATGACTTCCAAAACGATATCTGGCTTTGCCATTCTTTCGATGGAACATGTTTCAATTTCACCGCTTTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv07s0031g00330.t01 (Vitis vinifera), 3'ss of exon 3
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                                   |     ||||||     |       ||   | |  |||  |  | | |  |  |||  |  |  ||  | |  |   || ||    || |   | | | |  ||||||||||| |||||||||||||||| |||||||| |||  ||| |||||||||||||||||||| ||||| ||    || ||| ||||||| || |||
-------------------------------------------------------------------gagaattctgtttctcctcggttaatgagaagtaacatttttgcttttgatctaat--ttcttgttttaattttgacttaatgtttgattggtattcttt--agAATGGAGTGAGAGGATTGATGTTGGATATGTACGACTTCGAGAATGATATCTGGCTCTGCCATTCATTTCGGGGGCAGTGTTACAACTTCACAGCCTTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ37639 (Selaginella moellendorffii), 3'ss of exon 1
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                                              |  |||||   |  |  ||   || |   |   ||| | |    |  || |  ||    | |||| |   |    || ||    | ||  ||||| ||||| || ||||||||| | ||||||||||| ||   ||||||||| ||| | ||||||||||||| ||||   ||| |  ||||||| || |||
-----------------------------------------------------------------------------gttggtttttagagatcaag--cgctagttttgtataccatcttgtcttgct--tttggtttctctatc--tcacggatttgatctctcgccagAACGGAGTACGGGGATTGATGCTCGACATGTACGACTTTATGAACGATATTTGGTTGTGCCATTCTTTTCAAGGCCAGTGCCAGAACTTCACTGCCTTT

upper sequence: PP1S62_51V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ15049 (Selaginella moellendorffii), 3'ss of exon 2
gtaaaacccatacctattttgttggggaaaccttttggaaaaattgaaggatgcataagacttgattggaggctctgttcagttttctcacttggagattgccatgctgacatatcgttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                                                              |  |||||  ||  |  ||   || |   |   ||| | |    |  || |  ||    | |||| |   |    |  ||    | ||  ||||| ||||| || ||||||||| | ||||||||||| ||   ||||||||| ||| | ||||||||||||| ||||   ||| |  ||||||| || |||
-----------------------------------------------------------------------------gttggtttttacagatcaag--cgctagttttgtataccatcttgtcttgct--tttggtttctctatc--tcacgggtttgatctctcgccagAACGGAGTACGGGGATTGATGCTCGACATGTACGACTTTATGAACGATATTTGGTTGTGCCATTCTTTTCAAGGCCAGTGCCAGAACTTCACTGCCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgaatactgttgattccactgctcttttgattggagacttacaatgtctgcagAATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTT
                                     gacttac  putative branch site (score: 2)
                          ttttgatt  TA-rich tract