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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagcaatagttgattaattgttttattttatgtatctttattctgaatcattaacgtaacacctactcttgtttgatgagtttatttgtctcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGCACAGCAGCACCTGTCCGAACCTAAAAACAAATCCCAAGACAAAGCCTTG

Basic information

species Glycine max
transcript GLYMA17G18200.1
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|21285658|gb|BQ473529.1|BQ473529
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|31307027|gb|CD392230.1|CD392230
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|16346765|gb|BI972360.1|BI972360
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|10848274|gb|BF070805.1|BF070805
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|22933841|gb|BU550980.1|BU550980
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|209723888|gb|BW675234.1|BW675234
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|13790582|gb|BG653173.1|BG653173
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|13125486|gb|BG316056.1|BG316056
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCT--C
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|13312686|gb|BG406337.1|BG406337
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|31309293|gb|CD394496.1|CD394496
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|31464972|gb|CD407000.1|CD407000
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
EST: gi|31456945|gb|CD398973.1|CD398973
EST:     GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGG                         GATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC
genomic: GCACTGACAGGAGGAAGCGTGACCCTCCACAGCGATTCATCAGGCGCAGGgtaacacttt ... tcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcattaacgtaacacctactcttgtttgatgagtttatttgtctcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGCACAGCAGCACCTGTCCGAACCTAAAAACAAATCCCAAGACAAAGCCTTG
                                       tttgtctc  CT-rich tract
                                 agtttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagcaatagttgattaattgttttattttatgtatctttattctgaatcattaacgtaacacctactcttgtttgatgagtttatttgtctcgttgccagGATGATGCACAAAGGCCCGGTCAGCCTGGTCAAGCACCTCGTCCTGCTGGCACAGCAGCACCTGTCCGAACCTAAAAACAAATCCCAAGACAAAGCCTTG

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