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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaattggtgatttgattcttttgaaattaaatttgtggaaatgatgagagactgagaatggggattgacttttttttttttaacttttggcttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTACAAAGCCAACTGAAGCAATGAGAGCTGCTATGGCAAGTGCTGAAGTTGA

Basic information

species Glycine max
transcript GLYMA10G30880.3
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|298171026|gb|HO016058.1|HO016058
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|207817842|gb|GD791847.1|GD791847
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|298187249|gb|HO034398.1|HO034398
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGGCACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|18041120|gb|BM309414.1|BM309414
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|298199179|gb|HO042542.1|HO042542
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|16104776|gb|BI892516.1|BI892516
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|298168497|gb|HO009427.1|HO009427
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|151394304|gb|EV264175.1|EV264175
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|9986743|gb|BE660851.1|BE660851
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|254320847|gb|GR827296.1|GR827296
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|298172122|gb|HO021714.1|HO021714
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGGATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|151394063|gb|EV263934.1|EV263934
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|298164274|gb|HO013919.1|HO013919
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTCGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
EST: gi|208280479|gb|GE080565.1|GE080565
EST:     CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTG                         TTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA
genomic: CTCAATCAGCTAGGGTTGCTTTGCTTGCTATCTTGTTGGAGGATTTTCTGgtaaattaac ... cttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagagactgagaatggggattgacttttttttttttaacttttggcttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTACAAAGCCAACTGAAGCAATGAGAGCTGCTATGGCAAGTGCTGAAGTTGA
                                ttttaac  putative branch site (score: 2)
                                             cttgtttt  putative PPT
                  attgactttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaattggtgatttgattcttttgaaattaaatttgtggaaatgatgagagactgagaatggggattgacttttttttttttaacttttggcttgttttagTTCAAGAGAAGATGGTAACTAGAATTGTGGATCTTCGTTCAGACACAGTTACAAAGCCAACTGAAGCAATGAGAGCTGCTATGGCAAGTGCTGAAGTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - -tgatttg
- - - - - - - - - - - -aaattaaa
- - - - - - - - - - - - - - - - - - - - -tgatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggattg