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'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaatatcaaattgacacatccaaaaactttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG

Basic information

species Glycine max
transcript GLYMA12G30520.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 7
----------gtttgtaatatcaaattgacacatccaaaaactttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
           ||    || ||| ||     | | || | |        ||||    ||| | | |||  |||  || ||   ||||||| |||||  | ||  | ||||| ||||||||||| ||||| || ||||| |||||||| || ||||||||||| |||||||| |||||||| 
gtacaactattttgactatttcacatctggtc-ttcacatatacaacacagttcttgaatgt-aatgatacttctttcatt-cttcagGTTTTACAGCGCATTTTAATGGGTACTGATGTTGTTAAAAACGTCAACAAGAATAATGCCTCACATGCTGTTCTCTTTGAAGCTCTTGCTCTT

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G700148_T01 (Zea mays), 3'ss of exon 7
gtttgtaatatcaaattgacacatccaaaaactttcttta---gttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
||      | |    || ||   || |       | |  |    |      | |  | |||   |    |  ||  ||||||| |||||  | ||  ||||||| ||||||||||| |||||||| ||||| || ||||| || ||||||||||| |||||||| |||||||||
gtactaccttttcttttaacttttctagtgcacctgtacaaaaatgtgtggactgcaatgattttgttgttgtc-cttcagGTTTTACAGCGTATTTTGATGGGTACTGATGTTGTTAAAAATGTTAACAAGAACAATGCCTCACATGCTGTTCTCTTTGAAGCTCTTGCTCTG

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 8
gtttgtaatatcaaattg-acacatcca--aaaact-ttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
    ||| || |   ||  ||   || |   || || | ||  | |      ||| || |||   |    | |||  ||||||| |||||  | ||  ||||||| ||||||||||| ||||| || ||||| || ||||| || ||||||||||| |||||||| |||||||||
----gtactacctttttttacttctctactgaacctgtactaaaatgtgtggattataatgatattattgtcatc-cttcagGTTTTACAGCGCATTTTGATGGGTACTGATGTTGTTAAAAACGTTAACAAGAACAATGCCTCACATGCTGTTCTCTTTGAAGCTCTTGCTCTG

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 7
gtttg-taatatcaaattgacacatccaaaaactttctttagttaacaaattttagtg-agccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
|||   || | |||  |  | |  |  || |  | |||||   |  |   |  | |    || ||   |    |||||||||| | ||  | ||| ||||||| || |||||||||||||||||||| ||||| ||||| || |||||||| || |||||||| ||  | |||
gttcaatattttcatgtgtaaatctgtaatatatgtctttgaatttcctctcatggcatggcatttcatggaaatttcagGTCCTTCAGCGAATATTGATGGGGACAGATGTTGTGAAAAATGTGAATAAAAACAATGCGTCTCATGCTGTGCTGTTTGAAGCTCTATCCCTG

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 7
gtttgtaatatcaaattgacacatccaaaaactttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
||    | | ||   |  | | |||  | |  | ||||     ||     | |  ||    || ||  |  |||||||||| | ||  | ||| ||||||| || |||||||||||||||||||| ||||| ||||| || ||||| || || |||||||| ||  | |||
gtacaaattttcttgtgtaaatatctgatatatgtcttcg---aaatctctctcatggcatttcatggaa-atttcagGTCCTTCAGCGAATATTGATGGGCACAGATGTTGTGAAAAATGTGAATAAAAACAATGCGTCTCATGCCGTGCTGTTTGAAGCTCTCTCCCTG

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
gtttgtaatatcaaattgacacatccaaaaactttctttagttaaca-aattttagtgagccttgattaatcattt-cagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
||     || ||  |  || | ||     || | || | || |     |||| || |||    || |   |  ||| |||||  ||||| ||||| | ||||||||||||||||||||||| |||||||| || ||||| || ||||||||||| ||||||||||||||||| 
gtactccatttctcagcga-atatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S171_160V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------gtttgtaatatcaaattgacacatccaaaaactttctttagtta-acaaattttagtgagccttgattaatcat----ttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
                 | | |   | |    | |  |||    |||  |  ||     |    || |  |   || |    |||  || |    | |||||  ||||||  ||  || || | || ||||||||||||||  | || ||||| |||||||| ||||||||||| ||||| || ||| || ||
ctctgcgtcacgttttgggtagaggtttatgttagttacagtttaaatgtgactgcgcctctgtaattccttaggatcacaaatttttcttgctgtgcagGTTCTACAAACAATCTTGTTGCGTACAGATGTTGTGAAAAACATTAATAAAAACAATGCATCTCATGCTGTTCTCTTTGAGGCACTTTCTTTG

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S26_36V6.1 (Physcomitrella patens), 3'ss of exon 7
--------------------------------------gtttgtaatatcaaattgacacatccaaaaactttctt-tagttaaca-aattttagtgagcct--tgattaatcattt----------cagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
                                       ||    | ||    |       ||  | |   ||||| | |||  |    |  ||  |||| |  | |||||  | ||          ||||| |||||||||||  || |||| || |||||||| |||||||| ||||||||||||||||| ||||||||||| || || || |||||  ||
gtaagctgatacttatgtctattctttttttctatttcattccctaaattgcttctgtttctcgtacactgttcttatggttctctcggtcataaggagcgtattaattaactaatttttttgggtacagGTTTTACAAAGGATCTTGTTGGGCACGGATGTTGTAAAAAATGTCAACAAAAATAATGCATCTCATGCTGTTCTCTTCGAGGCTCTTGCGTTG

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S507_6V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------gtttgtaat-atcaaattgacacatccaaaaactttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
                          ||  | |  |||  |||||    |||| |    | ||||   || |   || || || | | || |||    ||  ||   || ||  | ||  || |||||||||||||||| || ||||| || ||||| ||||| || ||||| || || |||||||| || ||||||
cactatttacatccaaatgtattgaattactgaggatcctattgatgtttccatacttatccttt---tatccttttctattgcgacgtg-ttacgttttgtagACTTTGCAGCGCATTTTGTTGGGAACTGATGTTGTAAAGAATGTCAATAAAAACAATGCCTCGCATGCGGTACTCTTTGAAGCACTCGCTCTG

upper sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ34224 (Selaginella moellendorffii), 3'ss of exon 7
gtttgtaatatcaaattgacacatccaaaaactttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
                      | |    |||||  || |    |  ||  | | |   |     ||    | |  ||||  | |||||  | || |||||||||||||  ||||| ||| | || || || |||||| ||||||||||||| |||||||| || ||| ||
--------------------gtagctctgaacttgtttaaaccgatcaaagtcatttgccacattttgcaaagtgtagGTTCTTCAAAGAGTCCTCATGGGAACTGATGCCGTGAAGAATATCAATAAGAACAATGCAACCCATGCTGTTCTCTTTGAAGCTCTGGCTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccaaaaactttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
                                        gattaat  putative branch site (score: 3)
                                              tcatttc  CT-rich tract
         tttctttagttaacaa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtaatatcaaattgacacatccaaaaactttctttagttaacaaattttagtgagccttgattaatcatttcagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC