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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatgatttctttcgtgatgtgctgttagtggcatttaccatgttaacttgcacaagaggaaccattatcttggctgactttgtttttcttcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACCCAGCCAATAAG

Basic information

species Glycine max
transcript GLYMA15G40060.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G40060.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 8
taatgattt-ctttcgtgatgtgctgttagtggcatttaccatgttaacttgcacaagaggaaccattatct-tggctgactttgtttttcttcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACCCAGCCAATAAG
||    | | ||| | | | ||  ||| ||           |    |  |||   |  |   || | ||| | |     |  || |||| |||| || |||||| |||||||| ||| |||| || || ||||||||| || ||||||||||||| || || ||
tagctttatgcttgcctaaagt--tgtcaggcctgaacttgaatgcaggttgggaattattcactactatttctcaaacagattattttccttcatgtgcagGCAGAAAGTGCCATTGTTGCGCTGAATTGTAGTGGGCTGGTCTTGGGGACCCAACCCATCAG
















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|254314632|gb|GR829625.1|GR829625
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|7588858|gb|AW704644.1|AW704644
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|58020690|gb|CX707432.1|CX707432
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|19053081|gb|BM731748.1|BM731748
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|151403013|gb|EV272826.1|EV272826
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|14989895|gb|BI315576.1|BI315576
EST:     TGNGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTC
EST: gi|208250786|gb|GE047781.1|GE047781
EST:     GGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: GGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|193698363|gb|FK638986.1|FK638986
EST:     GGAATTTGCAATG                         GCTGAAAGTGCTATTAATTGCACTAAACTGTAGTGGGATGCTCTTGGGGAC
genomic: GGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATT-ATTGCACTAAACTGTAGTGGGATGCTCTTGGGGAC
EST: gi|193583619|gb|FK541087.1|FK541087
EST:     GGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: GGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|58020886|gb|CX707628.1|CX707628
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|19270477|gb|BM886733.1|BM886733
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTG
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTG
EST: gi|58020497|gb|CX707239.1|CX707239
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|298191171|gb|HO038650.1|HO038650
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGAAAGTGCTATTATTACACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
EST: gi|8284333|gb|BE021892.1|BE021892
EST:     TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG                         GCTGANAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC
genomic: TGGGGGACCACGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATGgtaagtcttt ... tcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttgcacaagaggaaccattatcttggctgactttgtttttcttcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACCCAGCCAATAAG
                                 ctttgtttttcttctt  CT-rich tract
                                  tttgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taatgatttctttcgtgatgtgctgttagtggcatttaccatgttaacttgcacaagaggaaccattatcttggctgactttgtttttcttcttgagcagGCTGAAAGTGCTATTATTGCACTAAACTGTAGTGGGATGCTCTTGGGGACCCAGCCAATAAG

- - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - ggcattt
- - - - - - - - - - - - - - - - - - - ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - -cttgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctga