Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGTCAGACTCACTCCACACGTTTCGCAGCCGTTGGGTTCTTAGATCTGTCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaataccaattttctaatgggaggtgaaagggaaaaaagagggaaagaaaagtaaaccataggagagttaagaggattagattcccatccggcatgtt...

Basic information

species Glycine max
transcript GLYMA17G00670.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G00670.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv12s0035g02080.t01 (Vitis vinifera), 5'ss of exon 2
AAGGTCAGACTCACTCCACACGTTTCGCAGCCGTTGGGTTCTTAGATCTGTCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaataccaattttct----aatgggaggtgaaagggaaaaaagagggaaagaaaagta-aaccataggagagttaagaggattagattcccatccggcatgtt
 ||||| |  || || ||||| ||||||||||| ||| | |||||||| ||||| ||  |||| |||||||| ||||||||||||||||||||||||||||||||| |||  |||||    | || || |   |   | | ||  ||       ||   | ||||| |  |   ||   |     |||||   | |         
GAGGTCTGGATCGCTTCACACCTTTCGCAGCCGCTGGCTGCTTAGATCAGTCTCACCTGAACAATTCATCACCGTGGCCAATGCCATTGATGCTGCAAAGgtgaatcccatgtttctcccaactgtgaagatgatcagcataatcagacttgctaagccagaaccacacaaatattctaacagggagattttgaccatct-----
















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|9204012|gb|BE330236.1|BE330236
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|209705035|gb|BW653297.1|BW653297
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGGTGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|298173285|gb|HO016621.1|HO016621
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|31309556|gb|CD394759.1|CD394759
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGCCAG                      
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGC-AA---AGgtgaatacca ... attaagc
EST: gi|9203934|gb|BE330158.1|BE330158
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|192315505|gb|FK009685.1|FK009685
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATTTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|192315504|gb|FK009684.1|FK009684
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|151402796|gb|EV272609.1|EV272609
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|151402065|gb|EV271878.1|EV271878
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTCGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|5676828|gb|AI937958.1|AI937958
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|51335509|gb|CO979375.1|CO979375
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
EST: gi|31306636|gb|CD391839.1|CD391839
EST:     TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAG                         CAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC
genomic: TCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaatacca ... attaagccagCAATGGGACTCTGATCTGGTGGAAGCCAGGTACATAAAAGATCTTGAAGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGGTCAGACTCACTCCACACGTTTCGCAGCCGTTGGGTTCTTAGATCTGTCTCTCCCCAACAGTTCATCACAGTGGCCAATGCCATTGATGCTGCAAAGgtgaataccaattttctaatgggaggtgaaagggaaaaaagagggaaagaaaagtaaaccataggagagttaagaggattagattcccatccggcatgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG