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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcactgatctttgtgtgtgtggagggttgcttctttgaatcatctagtaactttaaagtttgaaaaatgaaccttggttcctttcttgatttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAGCTGCAGAGAGGTGGTTACATCACATGCAACATGCATTAGACAGTACTAC

Basic information

species Glycine max
transcript GLYMA14G20380.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G20380.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0008g04210.t01 (Vitis vinifera), 3'ss of exon 2
---tgcactgatctttgtgtgtgtggagggttgc--ttctttgaatcatctagtaactttaaagtttgaaaaatgaaccttggttcctttcttgatttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAGCTGCAGAGAGGTGGTTACATCACATGCAACATGCATTAGACAGTACTAC
    ||  || |  ||     |   |     |||  ||||||   |   | | ||| |  |  || ||  |||| |     | | | |   || |||||  ||||| ||||| || || ||||  || ||||| ||||| || ||||| || |||||||| ||||||||||| |||||||||||||| ||| | || |||   ||
agcagctttggttcttaacgttaatgccatctgcaattctttagcttcacaaataattaaatggtatgtcaaataa-----gatccttaaatttattttctgcagGCCATCCAGCGCTGATTGGACGTCATCGGCCATTCCCCGTCACCCACCAAGCTGCGGAGAGGTGGTTGCATCACATGCAACAAGCACTGGATAGTGTCAC
















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|298176011|gb|HO015416.1|HO015416
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|151411791|gb|EV281602.1|EV281602
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298180166|gb|HO025381.1|HO025381
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192333050|gb|FK024699.1|FK024699
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192310472|gb|FG999187.1|FG999187
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTTTCTTTTTTCAGAGAAGAG                         GACATCCTGCTTTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298188951|gb|HO035644.1|HO035644
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|151410942|gb|EV280757.1|EV280757
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|58022773|gb|CX709514.1|CX709514
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|207719569|gb|GD702068.1|GD702068
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192300805|gb|FG989717.1|FG989717
EST:     TCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: TCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|13125116|gb|BG315686.1|BG315686
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCCACATCGACC
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACC
EST: gi|209710293|gb|BW676355.1|BW676355
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|13125139|gb|BG315709.1|BG315709
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192310471|gb|FG999186.1|FG999186
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192317177|gb|FK009778.1|FK009778
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|48575090|gb|CO036229.1|CO036229
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192322320|gb|FK014561.1|FK014561
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298178491|gb|HO024226.1|HO024226
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|209707693|gb|BW676672.1|BW676672
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|213618183|gb|DB965340.1|DB965340
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298170523|gb|HO019147.1|HO019147
EST:     GTTCTTCGCGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|38193212|gb|CF922418.1|CF922418
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192303821|gb|FG998173.1|FG998173
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|192332624|gb|FK025729.1|FK025729
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298167358|gb|HO012621.1|HO012621
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|58021991|gb|CX708732.1|CX708732
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298172547|gb|HO019587.1|HO019587
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|151404331|gb|EV274141.1|EV274141
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298191186|gb|HO038665.1|HO038665
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG
EST: gi|298196640|gb|HO041383.1|HO041383
EST:     GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAG                         GACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATTAAG
genomic: GTTCTTCGTGCAGCGAATGGGTGGTCCTCCTCTCTTTTCTCAGAGAAGAGgtaacatttt ... tttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtaactttaaagtttgaaaaatgaaccttggttcctttcttgatttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAGCTGCAGAGAGGTGGTTACATCACATGCAACATGCATTAGACAGTACTAC
                                 ttcctttcttgatttt  CT-rich tract
       tttaaagtttgaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcactgatctttgtgtgtgtggagggttgcttctttgaatcatctagtaactttaaagtttgaaaaatgaaccttggttcctttcttgatttttggcagGACATCCTGCTCTAATTGCTCGACATCGACCATTTCCTGTCACGCATCAAGCTGCAGAGAGGTGGTTACATCACATGCAACATGCATTAGACAGTACTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
tgcactg
- - - - - - -gtgtgtg
- - - - - - - - - - - - - - tgcttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat