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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaaacccataattcgagcctatttattgatagtgtcaagtcaaaagactaagttttgggtgctatcaattttttatttcctatttattgatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTTCCAAAGGGTCTTCCAGATTGGAAAGAAGAGGAAAAGGTTCATCTTGGTG

Basic information

species Glycine max
transcript GLYMA16G09450.1
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|17021153|gb|BM092187.1|BM092187
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|193383382|gb|FK345397.1|FK345397
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|193557313|gb|FK514384.1|FK514384
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|51335009|gb|CO978875.1|CO978875
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|193689852|gb|FK632343.1|FK632343
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|193494689|gb|FK463573.1|FK463573
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|17023078|gb|BM094112.1|BM094112
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|17020613|gb|BM091647.1|BM091647
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|208053721|gb|GD852710.1|GD852710
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGT
EST: gi|193473613|gb|FK442732.1|FK442732
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
EST: gi|192300344|gb|FG991446.1|FG991446
EST:     AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTG                         GTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT
genomic: AGAGGGATTGGGAGCAGTATCATAGCCCAAGGAACCTCCTTTTGGCTTTGgtatgcttct ... gatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagactaagttttgggtgctatcaattttttatttcctatttattgatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTTCCAAAGGGTCTTCCAGATTGGAAAGAAGAGGAAAAGGTTCATCTTGGTG
                                         tattgat  putative branch site (score: 3)
                   tatcaattttttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaaacccataattcgagcctatttattgatagtgtcaagtcaaaagactaagttttgggtgctatcaattttttatttcctatttattgatttcacagGTGGGTGAAGTGGGAGAATTGTCTGAGATATTTCAGTGGAAAGGGGAGGTTCCAAAGGGTCTTCCAGATTGGAAAGAAGAGGAAAAGGTTCATCTTGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - -acccata
- - - - - - - - - - - - - - - - - tgtcaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgggtg