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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgttagatttaagttatcggcactaagttattctctattctgttgcaatttgatgtcttgctaacatattaagtatttgtttattgtgtatctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCCTCAATTGAAGACAAATCAACTCCGATGGACGTTCACCGGTGCTTTTGAG

Basic information

species Glycine max
transcript GLYMA20G33060.1
intron # 13
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:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|23734603|gb|BU765538.1|BU765538
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|254320985|gb|GR827434.1|GR827434
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|33389653|gb|CA852860.1|CA852860
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|58024592|gb|CX711333.1|CX711333
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|7028356|gb|AW458139.1|AW458139
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|15816107|gb|BI788382.1|BI788382
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|192296891|gb|FG991917.1|FG991917
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|57574872|gb|CX547847.1|CX547847
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|209729394|gb|BW663669.1|BW663669
EST:     TTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: TTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|18041371|gb|BM309665.1|BM309665
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|21678390|gb|BQ630741.1|BQ630741
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|38193712|gb|CF922918.1|CF922918
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|58021524|gb|CX708265.1|CX708265
EST:     GTTAAGGCCTCTGTTATTATATGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|37995900|gb|CF807489.1|CF807489
EST:     GTTAAGGCCTCTGTTATTATNTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|192324820|gb|FK018796.1|FK018796
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|193439103|gb|FK408974.1|FK408974
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTTAGTACAGACCAACCATGCCTG
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTG
EST: gi|16344795|gb|BI970390.1|BI970390
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|57575922|gb|CX548893.1|CX548893
EST:     GTTAAGGCCTCTGTTATTATNTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|17022140|gb|BM093174.1|BM093174
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|38193120|gb|CF922326.1|CF922326
EST:     TTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGNCA-G                         ATTGATTGCTAA
genomic: TTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTG-CAAGgtttcatttt ... atctatgtagATTGATTGCTAA
EST: gi|120530840|gb|EH258973.1|EH258973
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|12690010|gb|BG156346.1|BG156346
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|37994787|gb|CF806376.1|CF806376
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
EST: gi|208262230|gb|GE060529.1|GE060529
EST:     GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAG                         ATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC
genomic: GTTAAGGCCTCTGTTATTATTTGCTTCACTTCATCTGGAAGAGCTGCAAGgtttcatttt ... atctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatttgatgtcttgctaacatattaagtatttgtttattgtgtatctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCCTCAATTGAAGACAAATCAACTCCGATGGACGTTCACCGGTGCTTTTGAG
              tgctaac  putative branch site (score: 1)
                 taacatattaagtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgttagatttaagttatcggcactaagttattctctattctgttgcaatttgatgtcttgctaacatattaagtatttgtttattgtgtatctatgtagATTGATTGCTAAGTACAGACCAACCATGCCTGTGATATCTGTTGTCATTCCTCAATTGAAGACAAATCAACTCCGATGGACGTTCACCGGTGCTTTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - ctgttgc