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'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   		30  
 5'  3'   		31  
 5'  3'   		32  
 5'  3'   		33  
 5'  3'   		34  
 5'  3'   		35  
 5'  3'   		36  
 5'  3'   		37  
 5'  3'   		38  
 5'  3'   		39  
 5'  3'   		40  
 5'  3'   
41  
 5'  3'   		42  
 5'  3'   		43  
 5'  3'   		44  
 5'  3'   		45  
 5'  3'   		46  
 5'  3'   		47  
 5'  3'   		48  
 5'  3'   		49  
 5'  3'   		50  
 5'  3'   		51  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtctatatcttggcctcaattatttgcttccaactgggtctatgcacaataatgcttcttacatctacatttttttgttaacttttttatgaccagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCATGACTTCCCGGAGTTTCTCTGTGATTATCACTTTACCTTTTGTGATGTTA

Basic information

species Glycine max
transcript GLYMA03G27270.1
intron # 46
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G27270.1 (Glycine max), 3'ss of exon 46
lower sequence: AT1G02080.2 (Arabidopsis thaliana), 3'ss of exon 44
gtttgt--ctatatcttggcctcaattattt-gcttccaact---gggtctatgcacaataatgcttcttacatctacatttttttgttaacttttttatgac-cagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCATGACTTCCCGGAGTTTCTCTGTGATTATCACTTTACCTTTTGTGATGTTA
||||||  || | |||   |   |||| ||| || |   ||      |  |||   | ||  |   |   |    |   |||||| ||    || || ||  |  |||||| | |||| || ||||| ||| | || ||  |  | || || |||||||| ||||| ||||| || ||||||||||| ||||| || |||||||| |
gtttgtgcctttttctcttctgtaattgttttgcattggacactaaaggatatagtcgatggtaacttaaagtggtctcttttttggtgtgtttattaattgcgtagGTTCATTTCCTATACAAAGGGACATTGAGAGTATTACTGGTTCTGCTTCATGATTTCCCAGAGTTCCTATGTGATTATCATTTTACTTTCTGTGATGTGA

upper sequence: GLYMA03G27270.1 (Glycine max), 3'ss of exon 46
lower sequence: Vv00s0144g00010.t01 (Vitis vinifera), 3'ss of exon 17
-----gtttgtctatatcttggcctcaattatttgcttccaactgggtctatgcacaataatgctt-cttacatctacattttt--ttgttaacttt--tttatgaccagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCATGACTTCCCGGAGTTTCTCTGTGATTATCACTTTACCTTTTGTGATGTTA
      ||  ||    | ||||  | |||||||||  |   |     |  |   |  ||| |  || ||  | | |  ||  ||  |||||   ||   ||| |   ||| | | | | || ||||||||||| || ||||| ||  | ||||| || ||||| ||||||||||| || ||||||||||| || | ||| |||||||| |
gtttgcttcttcagcttattgggtttaattatttgtcttttaaatatttcagagaatatattatttgctggcttttctatccttaattgtttgtttcaatttttttacagATACTTTTTCTATATAAAGGCACTCTAAGGGTACTGCTTGTGCTGCTCCATGATTTCCCGGAGTTCCTGTGTGATTATCATTTCAGCTTCTGTGATGTGA

upper sequence: GLYMA03G27270.1 (Glycine max), 3'ss of exon 46
lower sequence: Vv15s0021g02610.t01 (Vitis vinifera), 3'ss of exon 13
gtttgtctat----atcttggcctcaattatttgcttccaactgggtctatgcacaataatgcttcttacatctacatttttttgttaactttttta--tgaccagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCATGACTTCCCGGAGTTTCTCTGTGATTATCACTTTACCTTTTGTGATGTTA
||||| || |    ||    || |||  |  |||||| || ||   | || ||  ||      || |||||| |   |||  ||      ||||||    |  ||||||| | | || |||| |||||||||||||||||| ||| ||||||||||||| |||||||||||||| ||||  ||||| |||||||| |||||||| |
gtttgcctcttttaattgcagcatcatcttcttgcttgcagctcactataggctgaaa-----ttattacattttgttttcctttcgtgtttttttgaccgtgcagGTTCATTTTCTGTATAGAGGCACACTTAGGGTGCTGTTAATGCTACTTCATGATTTCCCGGAGTTTCTATGTGGCTATCATTTTACCTTCTGTGATGTGA

upper sequence: GLYMA03G27270.1 (Glycine max), 3'ss of exon 46
lower sequence: PP1S41_25V6.1 (Physcomitrella patens), 3'ss of exon 43
gtttgtctatatcttggcctcaattatttgcttccaactgg-gtctatgcacaataatgcttcttacatc-tacatttttttgttaacttttttatgaccagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCATGACTTCCCGGAGTTTCTCTGTGATTATCACTTTACCTTTTGTGATGTTA
    |  || || ||  |        || |  | | | | | |  | |  | ||| |||  | ||| ||  || |||  | ||| ||| |   | || | ||||||| || || || || |||||  |  | || ||  | |||||||| || ||||||||||||||| | |||||| ||||||| | ||||||||| || |
caaagcatacatattttctagcgcatttggtgtacgattagtgaatgttaagaatgatgtattttaaattatatattgatctgt-aacctgggtttggc-agGTTCGGGTGCTTTACAAGGGCACGTTGCGTGTTCTTCTTGTGCTACTCCACGACTTCCCGGAGTTTTTATGTGATCATCACTTCAGCTTTTGTGACGTCA

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|7685711|gb|AW756359.1|AW756359
EST:     TGTTCCAATTTATGGAGCCTTTTCTGAGGCATGCTGAACTTGGAGAACCG                         GTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCAT
genomic: TGTTCCAATTTATGGAGCCTTTTCTGAGGCATGCTGAACTTGGAGAACCGgtttgtctat ... ttatgaccagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCAT
EST: gi|24136176|gb|BU926686.1|BU926686
EST:     CTTGGAGAACCT                         GTTCGCGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCAT
genomic: CTTGGAGAACCGgtttgtctat ... ttatgaccagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcacaataatgcttcttacatctacatttttttgttaacttttttatgaccagGTTCGTGTCCTCTATAAAGGCACACTTAGGGTGCTCTTAGTGCTACTTCATGACTTCCCGGAGTTTCTCTGTGATTATCACTTTACCTTTTGTGATGTTA
                                  tgttaac  putative branch site (score: 2)
                                        cttttttat  CT-rich tract
                     atctacatttttttgt  TA-rich tract