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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatattaaattttaatcatcgtttcagacagacgtgattttgatagttggaaacatataaaacctttggggcatttttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG

Basic information

species Arabidopsis thaliana
transcript AT1G22870.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g42950.2 (Oryza sativa), 3'ss of exon 6
----------gtatgtatattaaattttaatcatcgtttcagacag-acgtgattttgatagttggaaacatataaaacctttggggcatttttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG
           ||| |   || | | ||  |  ||    ||||||  |    | |||| ||  | ||||    || || |||        |    |||    | |||||||||||||| ||||||||| | |||||  | || |||||||| ||||||||||| ||||| ||||| || ||  | |||||||| 
actaggagctttatctgc-ttgactgttgtttgtctaaacagacaacatactaatttgttacctagaaatggttataatcttga------tccaatatcgtcttcagGAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAA

upper sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G061681_T02 (Zea mays), 3'ss of exon 6
--gtat-gtatattaaattttaatcatcgtttcagacagacgtgattttgatagttggaaacatataaaacctttggggcatt--tttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG
    |  | |    | | | |   |  | |  |      | |  ||    | | || |  || || ||      ||     |    |   |||  || ||||||||||| || ||||||||| | ||||| || || |||||||||||||||||||| || |||||||| || ||  | || ||||| 
caacacagcaggaaagagtcttgcctgcttgactagagaatgaaatggc-acaatttggtacctaaaatggtcctgatttttaagataacattcctttcagGAGAGAGATAATATGCAGAAGACAGAGTTTTTGAAGGCATTATCAGATATGTGGAAGGATTTTGATTCCCGAGTTCTTCGATATAAA

upper sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA09G00470.1 (Glycine max), 3'ss of exon 6
gtatgtatattaaattttaatcatc--gtttcagacagacgtg-attttgatagttggaaacatataaaacctttggggcatttttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG
||| |  | ||  | ||||  | |   |  | | | | | ||  |   ||  | ||  | |  |  ||   |||   |   | |  |  |||  | ||||| ||||| |||||||||||||| ||||||||||||||||| ||||||||||||||||| |||||||| |||||||| || || |||
gtaagatttttttagtttagccttttagcattaca-aaatgtataacatgcaaattttagagttg-aagttcttgatgatgtgtcctcctttccttcagGAAAGAGATAACATGCAGAAGTCAGAGTTCTTAAAAGCATTGTCAGATATGTGGAAAGATTTTGATTCACGTGTATTGCGATACAAG

upper sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 6
gtatgtatattaaattttaatcatcgtttcagac-agacgtgattttgatagttggaaacatataaaacctttggggcatttttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG
||| |  | ||  | ||||  | |        || | | || |   ||  | ||  | |  |  ||   |||   |   | | ||  |||  | ||||| ||||| |||||||||||||| ||||||||||||||||| ||||||||||||||||| |||||||| || ||||| || ||||||
gtaagatttttctagtttagccttttagcattacgaaatgttaacatgcaaattttagagttg-aagttcttgatgatgtgtcttcctttccttcagGAAAGAGATAACATGCAGAAGTCAGAGTTCTTAAAAGCATTGTCAGATATGTGGAAAGATTTTGATTCGCGCGTATTGCGATATAAG

upper sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------gtatgtatattaaatt-ttaatcatcgtttcagacag--acgtgattttgatagttggaaacatataaaacctttggggcatttttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG
                                 | |  | || | |||  |||  | | ||    |     | |  |  |    ||||||   || ||  || ||  |   ||  ||||  ||| |||||||| || || ||||||||||||||||||||  ||||||||||||| |||||||||||||| ||||| |||||||| || || ||||||
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggca-atggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgatagttggaaacatataaaacctttggggcatttttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG
 ttttgat  putative branch site (score: 4)
                                     tttttttatttatt  putative PPT
                                    atttttttatttattg  TA-rich tract