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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtagcagaatcagcatattgttgattacattggagttagttaaccatagcaagtggcttaattgtttattgtgtttgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAATGCCAATGTGGTAGAGGCAGTTAAGAAATGGTACCTTGGTGGCTCAAGTG

Basic information

species Glycine max
transcript GLYMA04G40030.1
intron # 4
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|254342752|gb|GR858914.1|GR858914
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|192302413|gb|FG997353.1|FG997353
EST:     AACATTCAGTGATCGCATACCATTTCCCAACAAATTCTACCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|298179554|gb|HO028025.1|HO028025
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGA
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGA
EST: gi|192305625|gb|FG994335.1|FG994335
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCA
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCA
EST: gi|58020389|gb|CX707131.1|CX707131
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|151404578|gb|EV274392.1|EV274392
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|151393172|gb|EV263047.1|EV263047
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|254320382|gb|GR826399.1|GR826399
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|254320381|gb|GR826398.1|GR826398
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|58017161|gb|CX703903.1|CX703903
EST:     ACCATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCCCTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|192302412|gb|FG997352.1|FG997352
EST:     AACATTCAGTGATCGCATACCATTTCCCAACAAATTCTACCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|151394357|gb|EV264228.1|EV264228
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|192305626|gb|FG994336.1|FG994336
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
EST: gi|254342751|gb|GR858913.1|GR858913
EST:     AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAG                         ATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT
genomic: AACATTCAGTGATCACATACCATTTCCCAACAAATTCTGCCACTGCTGAGgtaaagtagc ... tgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggagttagttaaccatagcaagtggcttaattgtttattgtgtttgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAATGCCAATGTGGTAGAGGCAGTTAAGAAATGGTACCTTGGTGGCTCAAGTG
                           ttaattgtttattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagtagcagaatcagcatattgttgattacattggagttagttaaccatagcaagtggcttaattgtttattgtgtttgttgtacagATTGTGGTGTCTTTGGAGGGGAAAGAAGACTCCAAGTATGTGATAGAGAATGCCAATGTGGTAGAGGCAGTTAAGAAATGGTACCTTGGTGGCTCAAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG