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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctcatttccctttagtgcagggtacacacgccttcccttaacctcgtattttctttttcttccctttgtttctgggacattcatgtcatgttctcccttttctccccttcatctgaaatgctactctaattgcacaagtttgaatctttttcatttttttattatatttattcattcatttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTTAAGTCCAACGCCAATCTGAAGCAGCAAGTGGGTTTGGCACCAAGACCCA

Basic information

species Glycine max
transcript GLYMA16G27220.1
intron # 1
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|192330819|gb|FK023048.1|FK023048
EST:     GTTGCCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: GTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|209706878|gb|BW653144.1|BW653144
EST:     GTTGCCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: GTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|208316981|gb|GE112794.1|GE112794
EST:     AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|192322955|gb|FK016686.1|FK016686
EST:     GGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: GGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|209716352|gb|BW650751.1|BW650751
EST:     GTTGTCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: GTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|213608455|gb|DB970884.1|DB970884
EST:     GTTGTCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: GTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|18040723|gb|BM309017.1|BM309017
EST:     AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|13480103|gb|BG509446.1|BG509446
EST:     TCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: TCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|192325422|gb|FK018378.1|FK018378
EST:     AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
EST: gi|193510669|gb|FK467167.1|FK467167
EST:     AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAA                         TCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT
genomic: AACTTCAGTTTCGATTCTAAATTGTTGCCGGCTCCAGCAACCTCTGCCAAgtaagttcct ... ttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagtttgaatctttttcatttttttattatatttattcattcatttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTTAAGTCCAACGCCAATCTGAAGCAGCAAGTGGGTTTGGCACCAAGACCCA
                                        ttcattt  CT-rich tract
            tttttcatttttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcctcatttccctttagtgcagggtacacacgccttcccttaacctcgtattttctttttcttccctttgtttctgggacattcatgtcatgttctcccttttctccccttcatctgaaatgctactctaattgcacaagtttgaatctttttcatttttttattatatttattcattcatttatatgcagTCTTTAATGGGTGTGATTGATTTCTACAACACTGGTGCTTTGTGCTGGGTTAAGTCCAACGCCAATCTGAAGCAGCAAGTGGGTTTGGCACCAAGACCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG