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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtattaacttaattgggcttgtttgttaaccaaatcacctttctttaagtgatgagtgttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGACATGGATAAAGATAAGAAAGATGGGATCAAGTTTTACTATGATGGACAA

Basic information

species Glycine max
transcript GLYMA05G33640.1
intron # 6
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|19270123|gb|BM886379.1|BM886379
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTCCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|151396212|gb|EV266089.1|EV266089
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAATCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|31472707|gb|CD414735.1|CD414735
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|209707342|gb|BW670621.1|BW670621
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|151406975|gb|EV276790.1|EV276790
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGG
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGG
EST: gi|7589314|gb|AW705090.1|AW705090
EST:     CATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: CATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|208047392|gb|GD847373.1|GD847373
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|254314579|gb|GR829572.1|GR829572
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|207749236|gb|GD720066.1|GD720066
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|208150236|gb|GD950253.1|GD950253
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|11274883|gb|BF325208.1|BF325208
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|207806822|gb|GD778403.1|GD778403
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|254314578|gb|GR829571.1|GR829571
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|208339587|gb|GE133595.1|GE133595
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAG
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCC-AAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAG
EST: gi|208160057|gb|GD957037.1|GD957037
EST:     TACATTAATGGGCATGACCATTGCTCGGAACACATAAGTAGCAGAAGCAA                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|193414216|gb|FK377888.1|FK377888
EST:     ATGACCATTGTCTTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: ATGACCATTG-C-TTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|207719411|gb|GD703856.1|GD703856
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|192299309|gb|FG990734.1|FG990734
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTA
EST: gi|208151196|gb|GD948651.1|GD948651
EST:     ACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: ACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|208145072|gb|GD943523.1|GD943523
EST:     GTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: GTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|207748682|gb|GD717999.1|GD717999
EST:     TACATTAATGGGCATGACCATTGCTCGGAACACATAAGTAGCAGAAGCAA                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGACATGGAAAGGAG
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGG-CATGGAAAGGAG
EST: gi|208308677|gb|GE104541.1|GE104541
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|208274848|gb|GE067150.1|GE067150
EST:     GGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         TCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: GGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|208188727|gb|GD981801.1|GD981801
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
EST: gi|192301322|gb|FG990212.1|FG990212
EST:     TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTT
genomic: TACATTAATGGGCATGACCATTGCTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTT
EST: gi|193339105|gb|FK304410.1|FK304410
EST:     CTTGGAACACATAAGTAGCAGAAGCAG                         CCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA
genomic: CTTGGAACACATAAGTAGCAGAAGCAGgtgggtatta ... gttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgggcttgtttgttaaccaaatcacctttctttaagtgatgagtgttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGACATGGATAAAGATAAGAAAGATGGGATCAAGTTTTACTATGATGGACAA
           tgttaac  putative branch site (score: 2)
                           tttctttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtattaacttaattgggcttgtttgttaaccaaatcacctttctttaagtgatgagtgttgttgcagCCAAATCCAATTCTTAACCAGTGGTGGAGGTTCAAAGGCATGGAAAGGAGACATGGATAAAGATAAGAAAGATGGGATCAAGTTTTACTATGATGGACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA