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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatttctgggttgcactactcatgctttttggattgtttttatgattctttttccaccaacattcttctatgcttgctcaaagaattatgtacttacaatagtgcataacatagcatactgggaagtaaatttctctttgctgaaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG

Basic information

species Glycine max
transcript GLYMA20G33060.1
intron # 12
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|58019459|gb|CX706201.1|CX706201
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|23734603|gb|BU765538.1|BU765538
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|254320985|gb|GR827434.1|GR827434
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|33389653|gb|CA852860.1|CA852860
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|15813546|gb|BI785821.1|BI785821
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCC
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCC
EST: gi|58024592|gb|CX711333.1|CX711333
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|7028356|gb|AW458139.1|AW458139
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|15816107|gb|BI788382.1|BI788382
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|192296891|gb|FG991917.1|FG991917
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|57574872|gb|CX547847.1|CX547847
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|18041371|gb|BM309665.1|BM309665
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|21678390|gb|BQ630741.1|BQ630741
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|38193712|gb|CF922918.1|CF922918
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|58021524|gb|CX708265.1|CX708265
EST:     GATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATATGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|37995900|gb|CF807489.1|CF807489
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTNTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATNTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|192324820|gb|FK018796.1|FK018796
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|193439103|gb|FK408974.1|FK408974
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|16344795|gb|BI970390.1|BI970390
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTNNN                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|57575922|gb|CX548893.1|CX548893
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATNTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|17022140|gb|BM093174.1|BM093174
EST:     GCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: GCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|38193120|gb|CF922326.1|CF922326
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|120530840|gb|EH258973.1|EH258973
EST:     AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AATATGTGGGAGAGCCAATGAGCCATTTGGAATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|12690010|gb|BG156346.1|BG156346
EST:     ATCAATTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: ATCAATTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
EST: gi|208262230|gb|GE060529.1|GE060529
EST:     AGAGCCAATGAGCCATTTGGAATTCTAATTTGCTTCCTCTGCG                         GTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA
genomic: AGAGCCAATGAGCCATTTGGAA-TC-AA-TTGCTTCCTCTGCGgtacatttct ... aaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagtgcataacatagcatactgggaagtaaatttctctttgctgaaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG
     gcataac  putative branch site (score: 3)
                         aagtaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatttctgggttgcactactcatgctttttggattgtttttatgattctttttccaccaacattcttctatgcttgctcaaagaattatgtacttacaatagtgcataacatagcatactgggaagtaaatttctctttgctgaaacatacagGTTCGGGCAGCTATCAAGGTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC