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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactagaagtgcaggtgctgccaagtttaattattgacagaaaagtcaaatatactttttgtgatgtcctactgttctctcgtgtgttctttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGGATCAGATATTGTTCTTAATATGCATCAG

Basic information

species Glycine max
transcript GLYMA13G44000.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G44000.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g06040.t01 (Vitis vinifera), 3'ss of exon 5
tactagaagtgcaggtgctgccaagttt--aattattgacagaaaagtcaaatatactttttgtgatgtcctactgttctctcgtgtgttctttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGGATCAGATATTGTTCTTAATATGCATCAG
 |  |        ||       || |    ||||||| | | | |  | |  | |  |   ||  ||||   |||  ||   |      ||  |||||||||  ||||||| |||||||||||| | ||||| ||||| ||||| || || ||||| |||||| |||| || ||||| |||
-aacaccctcattggcttcataaaataccaaattattaaaaaatagatgatttgtgatgcctgc-atgtttcactaatcgaacactctctccatctctgcagCCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG
















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|298174489|gb|HO014634.1|HO014634
EST:     AGAAACATTTTGGAGGATCCCGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAG
EST: gi|17154054|gb|BM143987.1|BM143987
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|151403951|gb|EV273761.1|EV273761
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|298182900|gb|HO028113.1|HO028113
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAG
EST: gi|17153892|gb|BM143825.1|BM143825
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|192323236|gb|FK017402.1|FK017402
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|192329314|gb|FK020233.1|FK020233
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|208136320|gb|GD933246.1|GD933246
EST:     AAAGCTTTCAG                         TAACTTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTG
genomic: AAAGCTTTCAGgtatgttcat ... ttctctgcagTAAC-TGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTG
EST: gi|151397263|gb|EV267136.1|EV267136
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|13562443|gb|BG550663.1|BG550663
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAAAGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAA
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAA
EST: gi|31464055|gb|CD406083.1|CD406083
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|151410513|gb|EV280328.1|EV280328
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|9203815|gb|BE330039.1|BE330039
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTGTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|58019023|gb|CX705765.1|CX705765
EST:     AGAAACA-TTTGGAAGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|192306124|gb|FG996570.1|FG996570
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|298190798|gb|HO032919.1|HO032919
EST:     AGAAACATTTTGGAGGATCCTGGACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|193689192|gb|FK631403.1|FK631403
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|14012002|gb|BG726924.1|BG726924
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|208240966|gb|GE037780.1|GE037780
EST:     GGATCCTGAACTGAAAAATGCTGTAAAAGCTCTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: GGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|10232984|gb|BE801872.1|BE801872
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|22541152|gb|BU090995.1|BU090995
EST:     AAACATTTTGGAGGATCCTGAACTGAATAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|192306123|gb|FG996569.1|FG996569
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|18039188|gb|BM307482.1|BM307482
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
EST: gi|17021277|gb|BM092311.1|BM092311
EST:     AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAG                         TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG
genomic: AGAAACATTTTGGAGGATCCTGAACTGAAAAATGCTGTAAAAGCTTTCAGgtatgttcat ... ttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaatatactttttgtgatgtcctactgttctctcgtgtgttctttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGGATCAGATATTGTTCTTAATATGCATCAG
                             ttctctcgtgtgttct  CT-rich tract
     tatacttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactagaagtgcaggtgctgccaagtttaattattgacagaaaagtcaaatatactttttgtgatgtcctactgttctctcgtgtgttctttctctgcagTAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGGATCAGATATTGTTCTTAATATGCATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA