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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTGCAGAGGAACTCAGTACTGAGATTGGAAAGTTGTTTGAGGAACCACAGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatgattatacaatggcttctttgtttgtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcag

Basic information

species Glycine max
transcript GLYMA16G06850.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G06850.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G27300.2 (Arabidopsis thaliana), 5'ss of exon 7
ATCTGCAGAGGAACTCAGTACTGAGATTGGAAAGTTGTTTGAGGAACCACAGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatgatta--tacaatggcttctttgtttgtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcag
|||||||||| | || ||| || ||||||||   |||||||| |||||||||||||||||||||||||||||  ||||||| ||  |||| || ||| |||||| | ||  ||   |  | |   |  ||| ||  |||    |  |     ||     |||  | || |   |||    |         
ATCTGCAGAGCAGCTGAGTTCTCAGATTGGAGCCTTGTTTGAAGAACCACAGATTTATCGTATTGATCACTATCTGGGAAAAGAGTTAGTTCAAAACATGgtaacacatatttgcttctagtcattagtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcag--------

upper sequence: GLYMA16G06850.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 6
ATCTGCAGAGGAACTCAGTACTGAGATTGGAAAGTTGTTTGAGGAACCACAGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg-attatacaa-tggcttctttgtttgtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcag---------------------------------------
 ||||||||| |||| ||| |  |||||||| |||| ||||| |||||||||||||| ||||||||||||||  ||||||||||||| |||||||| ||||||||| ||| || ||| || | |  ||||| |||| |  |  |   |    |||| |    |   | |   | |  | ||| |||  |                                        
TTCTGCAGAGCAACTTAGTGCCCAGATTGGAGAGTTATTTGATGAACCACAGATTTACCGTATTGATCACTATCTGGGAAAGGAACTCGTGCAGAATTTGgtaatacatgtatcataaaaattgtgtctttatttgataaaaaaaaataa--taataaaatgtttgtctttgtatgccctattttgaaatgtctgctgatttctctccttatgccacttacatttgcag
















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|16278453|gb|BI942912.1|BI942912
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|192310375|gb|FK002255.1|FK002255
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTACCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|16348194|gb|BI973789.1|BI973789
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCG
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCG
EST: gi|254331186|gb|GR843305.1|GR843305
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|37995859|gb|CF807448.1|CF807448
EST:     TTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: TTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|16348742|gb|BI974337.1|BI974337
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|17519559|gb|BM188601.1|BM188601
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCTGCAGAGGAACTCAGTACTGAGATTGGAAAGTTGTTTGAGGAACCACAGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatgattatacaatggcttctttgtttgtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA