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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggaaaccttttcttaatgctctcctattagttagttagtttttgactccctacatatagaccttaagattctcaaggaaacatactggccatgtacctagagtttaaattttgttatacctcttacgataatactctgtattataacgttagtttgtacgctcaatgaccaatggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA

Basic information

species Arabidopsis thaliana
transcript AT3G19490.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os09g02214.1 (Oryza sativa), 3'ss of exon 5
gtatggaaaccttttcttaatgctctcctattagttagttagtttttgactccctacatatagaccttaagattctcaaggaaacatactggccatgtac-ctagagtttaaattttgttatacctcttacgataatactctgtattataacgtt---agtttgtacgctcaatgaccaatggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA
                                                                                        ||    |||||| | | |   ||| ||     | |    ||   | |||    || ||  | || |    |||||   |  |   |       | |||| |  |||| | ||| || |||||| | |||||||| || || |||||||| |||||||||||||| || || |||||||| ||||||||||||||||| 
--------------------------------------------------------------------------------------agcttttaatgtacacgacatcataagttacaagaaattgtttggaagaatgtcttgcatcctgacctcctgagttttccctattgttttattgggacagATTGTTAGGCGCTGTTGTTGTGATATCTGCAAATGCTGGGGGTGCATGGACACCAATTGGTGATGTGACGACCACTATGTTGTGGATTCATGGTCAGATT

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G053927_T02 (Zea mays), 3'ss of exon 5
gtatggaaaccttttcttaatgctctcctattagttagttagtttttgactccctacatatagaccttaagattctcaaggaaacatactggccatgtacctagagtttaaattttgttatacctcttacgataatactctgtattataacgttagtttgtacgctcaatgaccaatggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA
                                                                                  | ||  ||    |      |    |  ||||      ||   |  |  | |   |   | | ||||   || ||||   ||  | | | |     |||||| |  |||| | ||| || || |||||||| ||||| || || |||||||| |||||||||||||| || || |||||||| ||||||||||||||||| 
-------------------------------------------------------------------------------aatagcagtctaaagagcattttgttctccaaatccaacaatgaatactttggtggaatgttct-ttattgggtgagttaa-acattgacttattgg-ggcagATTGTTAGGTGCTGTTGTTGTAATAGCAGCGAATGCTGGCGGTGCATGGACACCAATTGGTGATGTGACAACCACTATGTTGTGGATTCATGGTCAGATT

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G40920.1 (Glycine max), 3'ss of exon 5
gtatggaaaccttttcttaatgctctcctattagttagttagtttttgactccctacatatagaccttaagattctcaaggaaacatactggccatgtacctagagtttaaattttgttatacctcttacgat---aatactctgtattataacgttagtttgtacgctcaatgaccaatggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA
                                                                                       |    | | ||    |   | ||   ||    |    | ||  | |    |||| |  ||| | | | | || | ||    |      |   || |||  |||| |||| ||| || || |||||||||||||| || || ||||||||||| |||||||||||||| || |||||| | ||||| ||||| || |||
-------------------------------------------------------------------------------------gaatcttctaagttttcattttctagtattctccaactattttgaggtttggatacaccttatcaaatcctcaggtggttgatttggattctgttgacagGATTCTTGGAGCTGTTGTTGTAATAGCAGCAAATGCGGGGGGTGCATGGACTCCTATTGGTGATGTTACAACTACTATGCTGTGGATACATGGGCAAATA

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G26550.1 (Glycine max), 3'ss of exon 3
gtatggaaaccttttcttaatgctctcctattagttagttagtttttgactccctacatatagaccttaagattctcaaggaaacatactggccatgtacctagagtttaaattttgttatacctcttacgataatactctgtattataacgttagtttgtacgctcaatgaccaatggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA
                                                                                ||| | |    |   | |   |     |  || | | |      |  |  |   | | |    || ||  | | |    ||    |      | | | ||||  |  | |||||||| || || |||||||||||||| || || ||||||| ||| ||||||| |||||| || |||||| | |||||  |||| ||  ||
--------------------------------------------------------------------------------gaatcttctaagttttctgtttcattctccaactatttggaggtttgtctggctacatttc--atcatgtcatcaagaagttgatttggattctatttgcagGATATTGGGAGGTGTTGTTGTAATAGCAGCAAATGCTGGTGGTGCATGGAGTCCTATTGGTGCTGTTACCACTACTATGCTGTGGATAAATGGCCAAGTA

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv03s0180g00120.t01 (Vitis vinifera), 3'ss of exon 5
gtatggaaaccttttcttaatgctctcctattagttagttagtttttgactccctacatatagaccttaagattctcaaggaaacatactggccatgtacctagagtttaaattttgttatacctcttacgataatactctgtattataacgttagtttgtacgctcaatgaccaatggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA
                                                                         | || |     |||       ||||  | |    |  | ||||   | |    ||   |   |  |||||||||      |  ||   |  |           || |||  | |||||||  || || |||||||| |||||||| || || || |||||||| |||||||||||||| || |||||| | ||||||||||||||||||
-------------------------------------------------------------------------tttcta-----cattactaaaatgttgccaatcctctatttttcagaaattctttgtcaacttgttctgtattac----ctttttcacattccagggtttggttgacagGTTCCTAGGAGCAGTTGTTGTGATAGCCGCAAATGCTGGTGGTGCTTGGACTCCCATTGGTGATGTTACCACTACTATGCTGTGGATTCATGGTCAGATA

upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S298_28V6.1 (Physcomitrella patens), 3'ss of exon 5
gtatggaaaccttttcttaatgctctcctattagttagttagtttttgactccctacatatagaccttaagattctcaaggaaacatactggccatgtacctagagtttaaattttgttatac---ctcttacgataatactctgtattataacgttagtttgtacgctcaatgaccaat--ggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA
|||||  ||  |  ||  | ||         |      ||  |  || |       || ||    || |   |        ||      | |     || || | |||| |   ||| |||     | | ||  |   | |  | | | | |   ||    |  | |      |||         ||| |||||||||  ||||| ||||| ||||| ||| |||| || |||||||| || ||||| ||||||||||| || ||| | ||||||||||| || || 
gtatg--aatttcatccgactgtctgaagggttacgccttgatactttatggtagtcacatgtcactgatcctatgggcaaaattgcttttgttgattatct-gggtttgataattgatatgtggtcacgtataaacttgccatctttgagagatttctgatccatgaatggggacgggctcaatagATTTCTAGGAGCAGTGGTGGTGATTGCAGCCAATTCAGGTGGTGCATGGACACCTATTGGGGATGTTACTACCACCATGCTGTGGATTCATGGCCATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgataatactctgtattataacgttagtttgtacgctcaatgaccaatggcagACTTCTAGGAGGTGTGGTAGTGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATA
                 ttataac  putative branch site (score: 2)
             tgtattataa  TA-rich tract