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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttactcatcattccaagtttctttcatgattcatggatgccttggtttatagaatttatgaattttgttttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAATGGCCAAAAACATTTATTGTTGTTTCTCATGCTAGAGAATTTTTAAACA

Basic information

species Glycine max
transcript GLYMA20G16170.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g58020.2 (Oryza sativa), 3'ss of exon 6
gtta-ctcatcattccaagtttctttcatgattcatggatgccttggtttatagaatttatgaattttgttttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAATGGCCAAAAACATTTATTGTTGTTTCTCATGCTAGAGAATTTTTAAACA
|| |  | |  |     | ||| ||||||   |    |  ||||  | | | |  ||            || | |||||||||||||||||||| |||||||| |||||| | ||| | ||  |  | ||||||||||| ||||| |||||||| || |||||||| || ||| | || |
gtaagtttaaaaacatgaatttgtttcatctctttctg--gcctatgctaacaagat-----------attattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAATGGCCAAAGACATTCATTGTTGTATCACATGCTAGGGAGTTTCTTAATA

upper sequence: GLYMA20G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G013890_T01 (Zea mays), 3'ss of exon 6
gttactcatcattccaagtttctttcatgattcatggatgccttggtttatagaatttatgaattttgttttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAATGGCCAAAAACATTTATTGTTGTTTCTCATGCTAGAGAATTTTTAAACA
|| | |    | |    | || |||     ||||         | | ||  | |   ||  |  | | |    || ||||| |||||||||||||||||||| |||||||| ||| ||||  |  | || |||||||| ||||| |||||||| || || || || || ||||| || |
gtaagttggaaatgtggggttatttttc--ttcac--------ttgcttgcacatgcta-aagctgtatcactttccagAACCATCTTGATCTTCATGCTGTGTTATGGCTAGAAACTTATCTCCTGAAGTGGCCAAAGACATTCATTGTTGTATCACACGCAAGGGAGTTTTTGAATA

upper sequence: GLYMA20G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G64550.1 (Arabidopsis thaliana), 3'ss of exon 6
gttactcatcattccaag-tttctttcat--gattcatggatgccttggtttatagaatttatgaattttgttttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAATGGCCAAAAACATTTATTGTTGTTTCTCATGCTAGAGAATTTTTAAACA
||   |  || ||  ||| ||||  | ||  |||  ||  ||     ||||| |   |||  |   |  | | || | | |||| ||||||||||| ||||||||||||||| | ||| | ||  |    || ||||||||||||||||| || ||||| |||||||| ||||| || ||||
gtgtgttttctttgtaaggtttcccttattagatcaatatattttcaggtttctgacattcttt--tcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA

upper sequence: GLYMA20G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g02160.t01 (Vitis vinifera), 3'ss of exon 6
-------------gttactcatcattccaagtttctttcatgattcatggatgccttggtttata---gaatttatgaattttgttttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAATGGCCAAAAACATTTATTGTTGTTTCTCATGCTAGAGAATTTTTAAACA
             | ||    |  |||  ||| | | | ||  | | |||  |  |||| | | |   | |||| | | |||| |||| |||||||| |||||||| ||||||||||| |||||||| ||  ||||| |||| ||||||||||||||| |||| ||||||||||||||||||||||| || ||||
gtacatcatgattgatagaacttcttcagagtatatgt-atattacttggcagaattgggtaaaacttgcattttttatttttatttttttgcagAACCATCTTGACCTTCATGCTGTTTTATGGCTGGAGACTTACCTGGTGAAATGGCCAAAAACAGTTATAGTTGTTTCTCATGCTAGAGAATTCTTGAACA

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|193524976|gb|FK482819.1|FK482819
EST:     CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACG                         AATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAA
genomic: CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACGgttactcatc ... tttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAA
EST: gi|37995248|gb|CF806837.1|CF806837
EST:     CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACG                         AATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACT
genomic: CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACGgttactcatc ... tttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgattcatggatgccttggtttatagaatttatgaattttgttttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAATGGCCAAAAACATTTATTGTTGTTTCTCATGCTAGAGAATTTTTAAACA
                                       ttttgtttt  CT-rich tract
                      tttatagaatttatga  TA-rich tract