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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaaaaataacattctcttattgttttagatgtcttccaaatgaactataagttgtctctagggaagttttaattggaaatgaaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG

Basic information

species Glycine max
transcript GLYMA07G03890.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 12
caaaaaataacattctcttattgttttag---atgtcttccaaatgaactataagttgtctctagggaagttttaa-ttggaaatgaaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
     ||  || || | ||| ||  || |   | |  || || || |  |     | |  | ||   |  || ||  ||     |  |||  |  |   | ||||| ||||| | ||| || || || |||||||||||||| || |||||||| |   ||||||| ||||| || | ||||||||| ||||||||||| ||||
----taaggaccttttattaatgaatttggcaaagaattgcacatcatattctgttggcatttatcaatattgtatcttctggtttgaatgatccaatatgcagGAGAAGAAAACTATTCGCCCTACATTTTCAGCTGAACGTATTTTTGGTGGAATATTATTGGCGATGTGTTCCAGTGATTTCATTTGCTTTTATGACTGGG

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
caaaaaataacattctcttattgttttagatgtcttccaaatgaactataagttgtctctagggaagttttaat----tggaaatgaaattttgt-atatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
        ||  |    ||  || | |||   | || || |  ||  | |   |     |  || | | | | |    ||  | | ||||| | | || |||||||| ||||| | |||||| ||  | |||||||| || || || ||||||||     | ||||||||||| || | ||||||||||||||||||||| ||||
-----gcaaatgtgaagtttctgatctagccatatttcacaaaaagcacattctaatcttttggtattctcattgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
----------------------caaaaaataacattctcttattgttttagatgtcttccaaatgaactataagttgtctc--taggga-agttttaattgga----------aatgaaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
                        |   |||  ||| | ||   || | |           ||  || |  |  |  |  |  ||| || || | | | |||           ||| |||  | || | |||||||||| |||||||||||| || ||||| ||||||||    || ||||| || ||  | || |||||||| || ||||||||||||||||| ||||||||||
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgt-tttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 12
---------------------caaaaaataacattctctt-attgttttag--atgtcttccaaatgaactataagt--tgtctctaggga-agttttaattggaaatgaaatttt------gtatattt-cagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
                       |   |   | |||| || |    | ||   |||  |     | | | |||   |  ||    | | || || | || | |||  ||     ||       || |||| |||||||||| ||||||||| || ||||||||||||||    || ||||| || ||  | || || ||||| |||| ||||||||||||||||||||||||||
gtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcagGAAAAGAGGAGTATCCGCCCTACTTTTTCAGCTGAGAAGATCTTTGGAGGAACCTTGTTAGCTATGTGTTCAAGTGATTTCATCTGCTTTTATGATTGGG

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 16
---------------caaaaaataacattctc---ttattgttttagatgtcttc--caaatgaactataagttgtctctagggaagttttaattggaaatgaaatt-ttgtatattt--cagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
                   |  |  | ||  |   | |||   |   | |  ||       ||     ||   |||     |  |     |||       ||| |   |||| || ||  ||||||||||||| | |  |||| || || ||||| || |  || |||||||| ||  ||||| |||||||||||| |||||| || ||||| ||||||||||
gtttgtaattccttttggcacgttccttttccgactgattaactctaaagcttttgttttttgtgtcttattctgttatctgaaatacactaacctatgctgatacccttgtttaatttgcagGAAAAGAAGACTGTGAGACCCACCTTCTCAGCAGAGCACATTTTTGGTGGGACGTTATTGACAATGTGCTCAAGTGATTTTATATGCTTCTATGATTGGG

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 12
caaaaaataacattctcttattgttttagatgtcttccaaatgaactataagttgtctctagggaagttttaattggaaatga-aattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
 |     |  || | |  | | |||  |  |||     ||||| |  |||  ||     | ||  |  || ||  |    | |  |  | | || ||||||||||||| |||| |||||||||| ||||||||||| |  || ||||| || ||| ||||||||||||||||||||||||| || || || ||||| ||||
tattgcctgccactgttgtctggttacaagtgttaggtaaatgcaa-atatattcctgttcggagaaattcaacagagtttaatgaagtggcatctttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAGCATATTTTTGGAGGAACTTTATTGGCAATGTGCTCAAATGATTTTATTTGTTTCTATGACTGGG

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 12
caaaaaataacattctctta--ttgttttagatgtcttccaaatgaactataagttgtctctagggaagttttaattggaaatgaaatt--ttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
  ||||  || | |||  ||  |  || | ||  |    |  ||  | |     |  |  || || ||  || ||| |    | |   |  | | ||  ||||||||||||||| ||| |||||||| ||||| |||||||  || | ||| ||  |  |  |||| || ||||||||||| ||||| || |||||||| ||||
--aaaaggaatactcttctaagtcattgtggaaatgcgactgatataattcttttcctgcctgggaaa--ttgaatggagtttaatggtggtggcattcttcagGAAAAGAAGAATATTCGACCAACCTTTTCTGCTGAACACATTTATGGAGGGGCACTTCTGGCGATATGCTCAAATGACTTCATTTGTTTTTATGACTGGG

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|254341657|gb|GR852794.1|GR852794
EST:     CTGTAAGAGAAAGTACATCGAAGGTCAAAATTTTCAGCAAAAATTTCCAG                         GAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGC
genomic: CTGTAAGAGAAAGTACATCGAAGGTCAAAATTTTCAGCAAAAATTTCCAGgttgtgcttc ... tatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctataagttgtctctagggaagttttaattggaaatgaaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG
                      ttttaat  putative branch site (score: 3)
                      ttttaattggaaatga  TA-rich tract