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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttcattctttaaaattggcattcttacttcatacttcatagtgctgtatttaacaatttttgtacatgaacctaaattattccattttattcaaccttctatgtatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCATTATGGGGTTCATGCCACAACGGAACAG

Basic information

species Glycine max
transcript GLYMA04G40220.1
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|151406003|gb|EV275818.1|EV275818
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|208220114|gb|GE017586.1|GE017586
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAA-GCATTATCAAAA
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAA
EST: gi|207809983|gb|GD781497.1|GD781497
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|22525728|gb|BU084539.1|BU084539
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|22525809|gb|BU084620.1|BU084620
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|193466586|gb|FK433043.1|FK433043
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|31307902|gb|CD393105.1|CD393105
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|151404475|gb|EV274289.1|EV274289
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|193489528|gb|FK455853.1|FK455853
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|16343713|gb|BI969308.1|BI969308
EST:     TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACCACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtacatgaacctaaattattccattttattcaaccttctatgtatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCATTATGGGGTTCATGCCACAACGGAACAG
           acctaaa  putative branch site (score: 3)
              taaattattccatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttttcattctttaaaattggcattcttacttcatacttcatagtgctgtatttaacaatttttgtacatgaacctaaattattccattttattcaaccttctatgtatttattagGTCCAGTGCTTCGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCATTATGGGGTTCATGCCACAACGGAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA