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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatgattataaagaatgtccaattctaaatgattatatatcattatatctattatcatgtgcatccatttaacactgttgtttctacctgtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG

Basic information

species Glycine max
transcript GLYMA16G20730.1
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|58021216|gb|CX707958.1|CX707958
EST:     ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|58023099|gb|CX709840.1|CX709840
EST:     ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|58024281|gb|CX711022.1|CX711022
EST:     ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|58016055|gb|CX702797.1|CX702797
EST:     ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|151407166|gb|EV276981.1|EV276981
EST:     ATATTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|58017910|gb|CX704652.1|CX704652
EST:     ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|17023093|gb|BM094127.1|BM094127
EST:     ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|16344896|gb|BI970491.1|BI970491
EST:     ATGTTGGAGGAGGAGTACTTAAATTTNNNAAGNNNAGCAATGAAGAAACG                         TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCNCT
genomic: ATGTTGGAGGAGGAGTACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCT
EST: gi|16347112|gb|BI972707.1|BI972707
EST:     ACTTAAATTTCCTAAGCACAGCAATGAAGAAAGG                         TTTAGTGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTC
genomic: ACTTAAATTTCCTAAGCACAGCAATGAAGAAACGgtatttgatt ... gtatctgcagTTTA-TGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatctattatcatgtgcatccatttaacactgttgtttctacctgtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG
                      atttaac  putative branch site (score: 3)
     tattatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atatgattataaagaatgtccaattctaaatgattatatatcattatatctattatcatgtgcatccatttaacactgttgtttctacctgtatctgcagTTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - ataaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgttg