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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatacactacatcacaacttaatctgttctgtccactttcttattaagacaaattcataatcaatatatgtattcctatgtttatctaatgtgttgaaacatgtaatgttgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGGCACAATGGCCTATTACAAGTTGCAGCTTCGTGATAGATCGATAGAGTTG

Basic information

species Glycine max
transcript GLYMA09G33490.1
intron # 16
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|19345902|gb|BM890782.1|BM890782
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
EST: gi|17963650|gb|BM270397.1|BM270397
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTATG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
EST: gi|193731702|gb|FK667544.1|FK667544
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
EST: gi|193548022|gb|FK505191.1|FK505191
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGNGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
EST: gi|15589634|gb|BI674250.1|BI674250
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
EST: gi|193527255|gb|FK483409.1|FK483409
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCCAACACCAGATGCATTGCTTAG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACC-AACACCAGATGCATTGCTTAG
EST: gi|207715848|gb|GD697966.1|GD697966
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAAT
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAAT
EST: gi|193624092|gb|FK573916.1|FK573916
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
EST: gi|21889700|gb|BQ742913.1|BQ742913
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
EST: gi|193649185|gb|FK599794.1|FK599794
EST:     AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGAT                         GTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG
genomic: AGTTCCGGGAGACCATTCTTGCTCTTGGAGGTGGCAAGCCACCACTAGATgtaagaatac ... tgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatgtattcctatgtttatctaatgtgttgaaacatgtaatgttgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGGCACAATGGCCTATTACAAGTTGCAGCTTCGTGATAGATCGATAGAGTTG
                   atctaat  putative branch site (score: 3)
            tatgtttatctaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaatacactacatcacaacttaatctgttctgtccactttcttattaagacaaattcataatcaatatatgtattcctatgtttatctaatgtgttgaaacatgtaatgttgctgtgcagGTTTTTGTGCAATTCCGTGGGAGAGAACCAACACCAGATGCATTGCTTAGGCACAATGGCCTATTACAAGTTGCAGCTTCGTGATAGATCGATAGAGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT