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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttattttctcttctctttctctttccttaattaattgccctatttatttatttttttcacttccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG

Basic information

species Glycine max
transcript GLYMA15G04300.1
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|208292044|gb|GE094244.1|GE094244
EST:     CACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: CACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|151394173|gb|EV264044.1|EV264044
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|192294632|gb|FG986481.1|FG986481
EST:     GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|209724919|gb|BW669608.1|BW669608
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|193542929|gb|FK503284.1|FK503284
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAA
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAA
EST: gi|151401884|gb|EV271697.1|EV271697
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGCTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|208294795|gb|GE094768.1|GE094768
EST:     GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|151402473|gb|EV272286.1|EV272286
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|209720222|gb|BW674562.1|BW674562
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|209720223|gb|BW674563.1|BW674563
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|209697438|gb|BW675583.1|BW675583
EST:     CTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: CTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|31463245|gb|CD405273.1|CD405273
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|254344722|gb|GR851312.1|GR851312
EST:     TGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: TGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|151397154|gb|EV267027.1|EV267027
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|192306327|gb|FG995107.1|FG995107
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|209697437|gb|BW675582.1|BW675582
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|207830761|gb|GD803699.1|GD803699
EST:     TAATCCATTTCTCAATCTCACTGTTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: TAATCCATTTCTCAATCTCACTG-TTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|31474890|gb|CD416918.1|CD416918
EST:     TTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: TTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|192306328|gb|FG995108.1|FG995108
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|209724918|gb|BW669607.1|BW669607
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|31468248|gb|CD410276.1|CD410276
EST:     GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GTAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|193397507|gb|FK361525.1|FK361525
EST:     TGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: TGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttatt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctttccttaattaattgccctatttatttatttttttcacttccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG
           aattaat  putative branch site (score: 3)
                    ccctatttatttattt  putative PPT
         ttaattaattgcccta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttattttctcttctctttctctttccttaattaattgccctatttatttatttttttcacttccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA