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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attcaaccttaacttcagcacattaatttacttgtgtctaatcacttgattaaacttatcatgtataatacaactcaattatgaaatttttatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAGGAACCATTGTATGCTAAGTTCCGTGTGCGGGAAGGTTTTAAGAGGCCCA

Basic information

species Glycine max
transcript GLYMA16G23090.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23090.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G51370.1 (Arabidopsis thaliana), 3'ss of exon 3
attcaaccttaacttcagcacattaatttacttgtgtctaatcacttgattaaacttatcatgtataatacaactcaa----ttatgaaatttttatg---tggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAGGAACCATTGTATGCTAAGTTCCGTGTGCGGGAAGGTTTTAAGAGGCCCA
       ||  |  |   ||    |   ||  ||       |   |   | ||  | ||| || | | |  || | ||     || || || ||| |    | |||||| ||||||||||| ||||| || || || |||||||| || ||||||||||||||||||||  | ||||   |  | || |||   || || || || |
-------ctgcatgtagacagtagacactaggtgcaaacgctagatatgtcaagataatcctggagattgaaattgaaaaggctaagatatgtttgttcctttgcagATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAAGGAACCATTGTACACAAAGTATAGAATCCGTGAACCGTTCAAAAGACCTA
















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|208046030|gb|GD844722.1|GD844722
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|207821551|gb|GD795978.1|GD795978
EST:     TGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGACTGAATTCAACAA
genomic: TGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGG-CTGAATTCAACAA
EST: gi|193461473|gb|FK429334.1|FK429334
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208207269|gb|GE002136.1|GE002136
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208324720|gb|GE118882.1|GE118882
EST:     TATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: TATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|298179179|gb|HO027650.1|HO027650
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|27424005|gb|CA935525.1|CA935525
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAA-
EST: gi|193599644|gb|FK551523.1|FK551523
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTATACCTAAAAAAGGCTGAATT
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATT
EST: gi|207789007|gb|GD760355.1|GD760355
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193645622|gb|FK586950.1|FK586950
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCG
EST: gi|193621092|gb|FK570398.1|FK570398
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208119016|gb|GD914709.1|GD914709
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGTGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208309330|gb|GE108890.1|GE108890
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193716888|gb|FK652108.1|FK652108
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCAAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208041930|gb|GD841364.1|GD841364
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193533861|gb|FK492936.1|FK492936
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAA-GGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208176628|gb|GD979101.1|GD979101
EST:     AATTGTGGTTCTAAAGCACAATGTAATGGCGGGTGAAGGGTCTGATACTG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AATTGTGGTTCTAAAGCACAATGTA-TGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208205713|gb|GE007020.1|GE007020
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTATACCTAAAAAAGGCTGAATT
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATT
EST: gi|193323898|gb|FK290078.1|FK290078
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATATTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208193455|gb|GD992886.1|GD992886
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193684686|gb|FK622266.1|FK622266
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTT-ACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193399264|gb|FK361770.1|FK361770
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193452282|gb|FK421096.1|FK421096
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTA
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTA
EST: gi|193589341|gb|FK545065.1|FK545065
EST:     ATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAA-GGCTGAATTCAACAAG
genomic: ATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|207739869|gb|GD716173.1|GD716173
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTG
EST: gi|193425865|gb|FK387408.1|FK387408
EST:     ATTGTGGTTCTAAAGCACAATGTATGGCGGGTAGAAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGAT
genomic: ATTGTGGTTCTAAAGCACAATGTATGGCGGGT-GAA-GGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGAT
EST: gi|208276964|gb|GE080761.1|GE080761
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTCGATCCATTGGCGATGTATACCTAAAAAAGGCTGAATT
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATT
EST: gi|208324457|gb|GE122706.1|GE122706
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193589804|gb|FK545168.1|FK545168
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193353071|gb|FK313925.1|FK313925
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTATACCTAAAAAAGGCTGAATTTAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|207807624|gb|GD776643.1|GD776643
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208309119|gb|GE108847.1|GE108847
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|193363158|gb|FK325730.1|FK325730
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|207792790|gb|GD767468.1|GD767468
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGT
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGT
EST: gi|193364026|gb|FK331722.1|FK331722
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208106908|gb|GD902399.1|GD902399
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATCTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAG
EST: gi|208274822|gb|GE069714.1|GE069714
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAAC
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAAC
EST: gi|193623275|gb|FK577327.1|FK577327
EST:     AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAG                         ATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAA
genomic: AAATTGTGGTTCTAAAGCACAATGTATGGCGGGTGAAGGGTCTGATACAGgtaagttttt ... tatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattaaacttatcatgtataatacaactcaattatgaaatttttatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAGGAACCATTGTATGCTAAGTTCCGTGTGCGGGAAGGTTTTAAGAGGCCCA
 acttgat  putative branch site (score: 5)
                                         tttttat  putative PPT
                  tataatacaactcaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attcaaccttaacttcagcacattaatttacttgtgtctaatcacttgattaaacttatcatgtataatacaactcaattatgaaatttttatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAGGAACCATTGTATGCTAAGTTCCGTGTGCGGGAAGGTTTTAAGAGGCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - ccttaac
- - - - - - - -cagcaca
- - - - - - - - - - - - - - -acttgtg
- - - - - - - - - - - - - - - - - - - - - cacttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caactca