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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgctaattatttgatagtaatgtctttggaattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG

Basic information

species Glycine max
transcript GLYMA16G06700.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g70960.1 (Oryza sativa), 3'ss of exon 4
gtaatgctaattatttgat---agtaatgtctttggaattttctaatgtatg---tctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
|| |  || |  | ||| |   ||| |  | |   | | ||||| || | |    | || || |    |   |  ||     |||||||||| | |||||||| ||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||||
gtgagactcacaaattgctgtcagtcacatgtggtgcaatttctcatctctagattgtatctaactctttgttttttacatattttcagGCCAGGCACAATGGCCAGAACTATGTTTTTGCTCTTCTCACTGGTTATCGTGATCCACCTGCTGGTGTTTCG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g70960.2 (Oryza sativa), 3'ss of exon 4
gtaatgctaattatttgat---agtaatgtctttggaattttctaatgtatg---tctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG----------------------------
|| |  || |  | ||| |   ||| |  | |   | | ||||| || | |    | || || |    |   |  ||     |||||||||| | |||||||| ||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||||                            
gtgagactcacaaattgctgtcagtcacatgtggtgcaatttctcatctctagattgtatctaactctttgttttttacatattttcagGCCAGGCACAATGGCCAGAACTATGTTTTTGCTCTTCTCACTGGTTATCGTGATCCACCTGCTGGTGTTTCGGTAACCCTCTCTCATACATATTGTTTTG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 3'ss of exon 5
gtaatgctaattatttgatagtaatgtctttggaattttctaatgtatgtctacctgaaatatatatccttgtgattt------ttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
|||||| ||    ||| ||   | || | ||| | | ||  |   |    || |  |   ||  |  |  | ||| |       |||||||  | |||||||| ||||||||||| ||||| ||||| |||||||| ||||| |||||||| ||||||  |
gtaatgata----ttttatgccattggcgttgcattgtttaatcttccaccttcaagttgtaatttactgtttgactccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g23620.4 (Oryza sativa), 3'ss of exon 4
gtaatgctaattatttgatagtaatgtctttggaattttctaatgtatgtctacctgaaatatatatccttgtgattt------ttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG----------------------------
|||||| ||    ||| ||   | || | ||| | | ||  |   |    || |  |   ||  |  |  | ||| |       |||||||  | |||||||| ||||||||||| ||||| ||||| |||||||| ||||| |||||||| ||||||  |                            
gtaatgata----ttttatgccattggcgttgcattgtttaatcttccaccttcaagttgtaatttactgtttgactccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAGGTAAATCTCATTCTCTGTCAGTTATACC

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
gtaatgctaattatttg-atagtaatgtctt--tggaattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
|||||   | ||| | |  | | | ||  ||  ||     ||  | ||  | |   | |    | |  ||   ||   |  | |||||  | ||||||||||||||||||||||| || ||||| ||||| || ||||| |||||||||||||||  |
gtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgattatg-gcttactgtttgcat---tgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 4
gtaatgctaattatttgatagtaatg-tct-ttggaattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
|||||   |  || ||  | | | || ||| |||  || ||| | ||  | |   | |    |  | |    ||  ||  |||||||  | ||||||||||||||||||||||| || ||||| ||||| |||| ||| |||||||||||||||  |
gtaattacagctaattttttgcagtgatctgttgtgatcttccattgcgtatg-gcttactgttcacaa---tgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G40810.2 (Arabidopsis thaliana), 3'ss of exon 3
--gtaatgctaattatttg-atagtaatgtctttggaattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
   |  ||||  || | |  ||    ||    || |||  |||  || ||     | || |   || |  |  | |  | || ||||| ||||||||||| || || ||||| ||||| ||  |||||||||||||||| || ||||||||  |||||
gtttggtgctctttctctccatttgtatacaattagaaaattc--atctactatgatctaagcaatttggc--tattttcttccagGCACGTCACAATGGCCAAAATTATGTCTTTGCTCTGTTGACTGGTTATCGTGATCCTCCTGCTGGAATTTCG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gtaatgctaatt-atttgatagtaatgtctttgg-aattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
      |  ||||| || | || |    ||  ||| | | ||  || |  | | ||| |     | |  | ||   || ||   || ||||| |||||||||||||  |||||||| ||||| |||||||||||||| ||||| || ||||||||  | |||
gtctgctgctgctactttactttaactgaacatctgtagcaaacttgtgttttgtgttt--taaatagttttaatgttctg-ccttccagGCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 4
gtaatgctaattatttgatagtaatgtctttggaattttctaatgtatgtctacctgaaatatatatc-cttgtgat-ttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
|||||    ||  | || |     |   | ||||  ||     | ||||| || |  |   |||| |  ||| || | ||||||||| || ||||||||||| |||||||| ||||| || || |||||||| ||||| |||||||||||  |||||
gtaatttctatgttctggtttggcttcttatggagattat--gtctatgt-tatccaagtgatatcttgcttttgttcttttcagGCTCGCCACAATGGTCAAAACTATGTATTTGCACTGCTAACTGGTTACCGTGATCCACCTGCTGGCATTTCG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g05950.t01 (Vitis vinifera), 3'ss of exon 3
gtaatgctaattatttgatagtaatgtctttggaattttctaatgtatgtctacc--tgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
       || | ||||  |  ||    | |||  |      ||||  |||| |||  |  ||||  |  |  | ||   | ||||||||| |||||||||||||| ||||| ||||| ||| | |||||||| ||||| || || ||||||||||| 
------gtattaattttgttatagatcccttgatagaagtgaatggctgtccacccctacaataactgactctttgtcctctcagGCCCGCCACAATGGTCAGAATTATGTATTTGCTCTTTTAACTGGTTACCGTGATCCTCCAGCTGGTGTTTCA

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|254330992|gb|GR842257.1|GR842257
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
EST: gi|192326638|gb|FK018855.1|FK018855
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
EST: gi|192306424|gb|FG997164.1|FG997164
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
EST: gi|192324650|gb|FK018746.1|FK018746
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
EST: gi|254314651|gb|GR829644.1|GR829644
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGGTCAGAACTATGTTTTTGCCCT-CTGACTGGTTATCG
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGG-TCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCG
EST: gi|254314652|gb|GR829645.1|GR829645
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
EST: gi|151408312|gb|EV278120.1|EV278120
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
EST: gi|151401029|gb|EV270843.1|EV270843
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
EST: gi|151408267|gb|EV278075.1|EV278075
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGGTTATCG
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGG-TTATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggaattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG
         ttctaat  putative branch site (score: 2)
                                               tttttc  putative PPT
     aattttctaatgtat  TA-rich tract