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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttatgggtgcaaactcaccatcacaccagattcaggattatggccatttaaaatgtatcttagtttttgtttaatatccatatcttttcactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAGAAACAGATTGGGGAGCAGTATCTTGCCAATGTTGAGAAGGAATTGGAGA

Basic information

species Glycine max
transcript GLYMA15G05410.5
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G05410.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv12s0055g00360.t01 (Vitis vinifera), 3'ss of exon 11
gtttatgggtgcaaactcaccat-cacaccagattcagg-attatggccatttaaa---atgtatcttagtttttgt-ttaatatccatatcttttcactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAGAAACAGATTGGGGAGCAGTATCTTGCCAATGTTGAGAAGGAATTGGAGA
     |  |  | |  || || | ||  |    || |   | |||  || | |      || ||||  |         || |||  || |  ||| ||  |  ||||  |||||||||||||||| |||  | ||||||||| |||| || ||||||||||| |||| |||||||||| ||||||||||||| ||||| || ||||
----gtatgctctaggtcgcctttcaagctccctttatctaatatatccttgtgtgtttatctatccaaaaaaaaaaatttatactcacaaatttgcatat--cagGTATTTCTAGAATGGAAGACTGCTCGGAGAGAGGAACTGTCTGAATATCAGAAACATATTGAGGAGCAGTATATTGCCAATGTTGAAAAGGAGTTAGAGA
















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|208213134|gb|GE009211.1|GE009211
EST:     GGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: GGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|207688423|gb|GD672650.1|GD672650
EST:     TTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: TTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|31307074|gb|CD392277.1|CD392277
EST:     ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|254336540|gb|GR842719.1|GR842719
EST:     ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|207822316|gb|GD796113.1|GD796113
EST:     ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|208255404|gb|GE052161.1|GE052161
EST:     GGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: GGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|207820072|gb|GD789978.1|GD789978
EST:     CCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGGGTATCAG
genomic: CCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|254336541|gb|GR842720.1|GR842720
EST:     ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: ACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
EST: gi|207718616|gb|GD700510.1|GD700510
EST:     GGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAG                         GCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG
genomic: GGATGAAGATCCTACATTACTTGAGAAGAGCAAAGAAGAGgttgtcaaac ... cactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatttaaaatgtatcttagtttttgtttaatatccatatcttttcactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAGAAACAGATTGGGGAGCAGTATCTTGCCAATGTTGAGAAGGAATTGGAGA
                         gtttaat  putative branch site (score: 4)
                                     tatcttttcacttt  putative PPT
     taaaatgtatcttagt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttatgggtgcaaactcaccatcacaccagattcaggattatggccatttaaaatgtatcttagtttttgtttaatatccatatcttttcactttgcagGCTTTTCTAGAATGGAAGAATGCAAGAAGAGAGGAAGTGTCCGAGTATCAGAAACAGATTGGGGAGCAGTATCTTGCCAATGTTGAGAAGGAATTGGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA