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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatcccactgaaaatttacattacaccacactattttccttttcattgtggttattgtgtttttgttttgagggaggtttaggtgagagttactattattgtcttgttatgctgatactcgaaatacattgggatttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAAAATGATTGTTGGAAATGAAGGAAACTTATCAGAAATCATTGTCCAAGGT

Basic information

species Glycine max
transcript GLYMA16G26340.1
intron # 3
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|208330902|gb|GE132679.1|GE132679
EST:     CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGC                         AGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
genomic: CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGCgtaagtgatc ... tttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
EST: gi|31309305|gb|CD394508.1|CD394508
EST:     CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGC                         AGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
genomic: CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGCgtaagtgatc ... tttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
EST: gi|31308755|gb|CD393958.1|CD393958
EST:     CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGC                         AGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
genomic: CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGCgtaagtgatc ... tttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
EST: gi|6915171|gb|AW396632.1|AW396632
EST:     CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGC                         AGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
genomic: CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGCgtaagtgatc ... tttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
EST: gi|7640680|gb|AW734977.1|AW734977
EST:     ACCCTCTTGAGTCCATTGGC                         AGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
genomic: ACCCTCTTGAGTCCATTGGCgtaagtgatc ... tttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
EST: gi|151399988|gb|EV269859.1|EV269859
EST:     CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGC                         AG-CCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGACTAAAGTGAA
genomic: CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGCgtaagtgatc ... tttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA
EST: gi|31561633|gb|CD487471.1|CD487471
EST:     CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGC                         AGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTACAGTGAA
genomic: CCAGATGTTGGCAACAACTGGTTTTGGATCACCCTCTTGAGTCCATTGGCgtaagtgatc ... tttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactattattgtcttgttatgctgatactcgaaatacattgggatttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAAAATGATTGTTGGAAATGAAGGAAACTTATCAGAAATCATTGTCCAAGGT
                                            atttaac  putative branch site (score: 3)
                                aaatacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgatcccactgaaaatttacattacaccacactattttccttttcattgtggttattgtgtttttgttttgagggaggtttaggtgagagttactattattgtcttgttatgctgatactcgaaatacattgggatttaacacagAGGCCTTTATTATTGGACTCGAGCATCCAGAAAGGAGCAGATTAAAGTGAAAATGATTGTTGGAAATGAAGGAAACTTATCAGAAATCATTGTCCAAGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA