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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catccatttgaaagaactataatgaagcttaatcttgcaaccactttttttgtcttaatttttttgggtataaaagtagtgcaatatgtattgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC

Basic information

species Glycine max
transcript GLYMA02G01060.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 3'ss of exon 8
--catccatttgaaagaactataatgaagcttaatcttgcaaccactttttttgtcttaatttttttgggtataaaagtagtgcaatatgtattgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC
       || ||    ||   |    |  |  || ||    |   | |||  |  |  |       | |    ||  ||  | |  |   | |    | ||||| || ||||| |||||||| ||||| |||||||| |||||||||||||| |||||||| || ||||| |||||||||||||| ||||||||||| || |
tctgattatgtgcttcaaactttggaagccacaagctcatgatttcatttcctaacacatcgaaaatcgtctcaa--gttttactttgaatttgtactgtagGTCCTCAATGCTAAACCAGAGAATGTAGAGAGGGAGGCAGAAATTGTAGCTCAGAGTGGACGCCTTGGTGCAGTGACAATTGCCACCAATATGGCGGGAC

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 10
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 9
---catccatttgaa---agaactataatgaagcttaatcttgcaaccactttttttgtcttaatttttttgggtataaaagtagtgcaatatgtattgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC
     |  || | ||   | | | ||||  ||    |||    |||  |  ||  ||||   |   |  |     || |  ||  |  | |||||  |      |||| || ||||| || ||||||||||| ||||||||||| |||||||||||||| ||||| ||| | |||||||| |||||||| || |||||||| || |
aatggtgtatgtaaagacaaaccaataaaaaaatcaaat----caattatattccttgtacaagaatactgacagatgat-gttatata-tatgttgtacaaaaagGTCCTCAATGCCAAGCCAGAAAATGTGGAGAGGGAAGCTGAAATTGTAGCACAAAGTGGCCGTTTAGGGGCAGTAACAATTGCCACAAATATGGCAGGGC

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 10
-catccatttgaaagaactataatgaagcttaatcttgcaaccactttttttgtcttaatttttttgggtataaaagtagtg--caatatgtattgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC
        || |     || |  ||  ||  ||  | || |  |  |  | | ||| ||| ||  | |    | |  || |    |||||   ||  ||  |||| || ||||| |||||||| ||||| ||||| |||||||||||||| |||||||||||||||||||||||||| |||||||||||||||||||| ||||
atgctatatttatgtttctcttttgctgcc-aacatagcca--aactactatatctaaatattcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 10
lower sequence: PP1S9_141V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------------------------------------------------------------------------------catccatttgaaagaactataatgaagcttaatcttgcaaccactttttttgtcttaatttttttgggtat----aaaagtagtgcaatatgtattgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC
                                                                                             | | |     |  ||||    | |  |   |  ||   |  ||        |    | |||||||     |    |      ||   | ||| |||  ||  ||||||| ||||| ||||||||||| || || || ||||| |||||||| |||||||| || ||  | || || |||||||| ||||| || ||||||||||
gtgacattcgtgttcttttaagtaggcgcgaatcacctaaaaattttagaattaggattaggttaattttctagctaatcatcataataatttcgtgcgcagaagggaacctggaggctggccagactctaattcagaagagacggtgcattttttttaaagcttcccactgaatgtttgagatg-attccttgcagGTACTGAATGCGAAACCAGAAAACGTCGAAAGAGAAGCTGAAATTGTTGCACAGAGCGGGCGCTTAGGAGCCGTGACAATAGCTACGAACATGGCTGGTC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|7692056|gb|AW760172.1|AW760172
EST:     AGAGTGATTCTTTGTCAGAGCAATTGAAAGAAGCTGGAATTCCGCACGAG                         GTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCA
genomic: AGAGTGATTCTTTGTCAGAGCAATTGAAAGAAGCTGGAATTCCGCACGAGgtaaggtccc ... ttgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCA
EST: gi|23731376|gb|BU763804.1|BU763804
EST:     AGAGTGATTCTTTGTCAGAGCAATTGAAAGAAGCTGGAATTCCGCACGAG                         GTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCA
genomic: AGAGTGATTCTTTGTCAGAGCAATTGAAAGAAGCTGGAATTCCGCACGAGgtaaggtccc ... ttgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCA
EST: gi|16278936|gb|BI943171.1|BI943171
EST:     AGAGTGATTCTTTGTCAGAGCAATTGAAAGAAGCTGGAATTCCGCACGAG                         GTACTTAATGCACAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCA
genomic: AGAGTGATTCTTTGTCAGAGCAATTGAAAGAAGCTGGAATTCCGCACGAGgtaaggtccc ... ttgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttgtcttaatttttttgggtataaaagtagtgcaatatgtattgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC
       tcttaat  putative branch site (score: 3)
                                             ttgtttct  putative PPT
         ttaatttttttgggta  TA-rich tract