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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactttttacatttgtactcttgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG

Basic information

species Glycine max
transcript GLYMA18G32830.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G32830.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
tactttttacatttgtactcttgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
              ||       | || ||||  | | | | || | | | | |    |   |||    | |||||  |||| ||| |  | |   |||||||| ||||| |||||| |||||||  | || |   | |||||||| || |||||||||||||| || ||||| ||||| |||||| | ||||| |||| 
--------------gtgagaggattcactttctgagtgttgtttctttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatg-cagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA-

upper sequence: GLYMA18G32830.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
tactttttacatttgtactcttgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
      |||     ||| | | |    || |    |||   |||  |   | | ||| ||| | |    | | |  ||| |      ||  |   | |||| | ||| || |||||  |||||||||| |||||  ||||||||||| |||||||||| ||||| ||||||  |  ||||||||   | |||||| |   
-----gttagtgaagtattttggatgcttatgccgctcacaatt-cagtcaatatggaagtataagag-tccaacacttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC-

upper sequence: GLYMA18G32830.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv00s0769g00010.t01 (Vitis vinifera), 3'ss of exon 8
tactttttacatttgtactcttgtccattttcatactctggattatatatat--tttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
    | | | |||| |  || |    || ||| |  ||   || |||| |||  | |  ||    ||     ||   | ||| |||    | |    |||||| ||||| || |||||| ||||||||||||||||  |||| |||||||| |||||||| ||||| || |||||  | || || ||| |||||||||||| 
-gtctgtaatattt-ttttcgtccaaatattctttttccacatgatatctatagtatttcataactaagttgacgtgtgtta-cctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA-

upper sequence: GLYMA18G32830.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
tactttttacatttgtactct-tgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
    | | | ||||||    | |    ||| |  | |       ||| |||| | |  ||    ||     ||   | ||| |||    | |    |||||| ||||| || |||||| ||||||||||||||||  |||| |||||||| |||||||| ||||| || |||||  | || || ||| |||||||||||| 
-gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgtta-cctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA-

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|298167977|gb|HO013240.1|HO013240
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|208247941|gb|GE045357.1|GE045357
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|208034341|gb|GD833411.1|GD833411
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGG
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGG
EST: gi|192334305|gb|FK024404.1|FK024404
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|17400187|gb|BM176969.1|BM176969
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|13790585|gb|BG653176.1|BG653176
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|208140662|gb|GD937846.1|GD937846
EST:     CCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: CCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|208258582|gb|GE055029.1|GE055029
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAAGACTGCTGG
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAA-G-CTGCTGG
EST: gi|11274268|gb|BF324636.1|BF324636
EST:     CTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: CTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|151413161|gb|EV282969.1|EV282969
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|193403025|gb|FK368971.1|FK368971
EST:     CTAGTGTCATTTGAGAAAG                         AGGAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: CTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|207747134|gb|GD721197.1|GD721197
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|151412679|gb|EV282491.1|EV282491
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|207811382|gb|GD783457.1|GD783457
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|192316447|gb|FK008180.1|FK008180
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|6724715|gb|AW309048.1|AW309048
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|193528361|gb|FK483919.1|FK483919
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|208160855|gb|GD965535.1|GD965535
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|208024185|gb|GD823787.1|GD823787
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGG
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGG
EST: gi|208104577|gb|GD904554.1|GD904554
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGG
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGG
EST: gi|192316448|gb|FK008181.1|FK008181
EST:     TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|208170991|gb|GD970184.1|GD970184
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|193650836|gb|FK600355.1|FK600355
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAA
EST: gi|208202443|gb|GD994846.1|GD994846
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
EST: gi|207759156|gb|GD734355.1|GD734355
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGG
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGG
EST: gi|193623836|gb|FK575130.1|FK575130
EST:     TCCTAACTCAGCCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAG                         AGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA
genomic: TCCTAACTCAACCGTGTATTTTGAAGTTGAGCTAGTGTCATTTGAGAAAGtaagtcaata ... tcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
                    tccctactaatcttat  CT-rich tract
                           taatcttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactttttacatttgtactcttgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - -cttgtcc
- - - - - - - - - - - - - - - -catactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctact