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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaaatataattagaaatactagtgcaatcataactagtctaggtcctatgttgtcatattttgttttgaaagttaccaacacttgtttttccccttgtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGAACTATAAATGCTGAAAATTTACAGCTTTGCTGTTTTCGATCTCAATTTT

Basic information

species Glycine max
transcript GLYMA02G10060.1
intron # 9
splice site 3'
intron type U2

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|208206292|gb|GE004183.1|GE004183
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|23733239|gb|BU764806.1|BU764806
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|208338432|gb|GE135646.1|GE135646
EST:     TAGGTCTATGGAACGTTCTCTCACTGATGAGGAAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCNGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: TAGGTCTATGGAACGTTCTCTCACTGATGAGGAAA-TAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|14196099|gb|BE657918.2|BE657918
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|8669342|gb|BE190449.1|BE190449
EST:     ATAGGTCTATGGAACCTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGA
EST: gi|193406503|gb|FK371808.1|FK371808
EST:     ATAGGTCTATGGAACGTTCTCTCACTGACGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|208310649|gb|GE106009.1|GE106009
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|207771423|gb|GD745306.1|GD745306
EST:     ATAGGTCTATGGAACGTTCACTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|207823121|gb|GD797002.1|GD797002
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACGGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|207754805|gb|GD730338.1|GD730338
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|207787715|gb|GD761499.1|GD761499
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|31310201|gb|CD395404.1|CD395404
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|11689832|gb|BF597508.1|BF597508
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|208327704|gb|GE124592.1|GE124592
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|7326714|gb|AW620512.1|AW620512
EST:     ATAGGTATATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|193670284|gb|FK613234.1|FK613234
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|193653407|gb|FK595219.1|FK595219
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|16341914|gb|BI967509.1|BI967509
EST:     ATAGGTCTATGGAACG-T-TCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|207786084|gb|GD756195.1|GD756195
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|208338162|gb|GE133934.1|GE133934
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|193622449|gb|FK570091.1|FK570091
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATG
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATG
EST: gi|193583291|gb|FK540185.1|FK540185
EST:     ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: ATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
EST: gi|193719750|gb|FK650946.1|FK650946
EST:     TAGGTACTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAG                         TGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA
genomic: TAGGT-CTATGGAACGTTCTCTCACTGATGAGGAAATAAACGATCTGCAGgtattaaata ... gtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcatattttgttttgaaagttaccaacacttgtttttccccttgtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGAACTATAAATGCTGAAAATTTACAGCTTTGCTGTTTTCGATCTCAATTTT
                              cttgtttttccccttg  CT-rich tract
     tattttgttttgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattaaatataattagaaatactagtgcaatcataactagtctaggtcctatgttgtcatattttgttttgaaagttaccaacacttgtttttccccttgtcaatgcagTGGAAAGTAAGAGAACAGGTGCAGAGCAAATTGAATGTTGTCTTAAGATGAACTATAAATGCTGAAAATTTACAGCTTTGCTGTTTTCGATCTCAATTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT