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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttaaattctatatactcagatactcaatgatgattttgttctctacacactgtgctctcatggtaacaacctaacttgttttatctttgtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATTTTACGG

Basic information

species Glycine max
transcript GLYMA18G04360.1
intron # 9
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|213607516|gb|DB976618.1|DB976618
EST:     TCATTGGCAGTCATCAAAAAGAAAAGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
genomic: TCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
EST: gi|22929873|gb|BU547012.1|BU547012
EST:     AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
genomic: AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
EST: gi|207686936|gb|GD670464.1|GD670464
EST:     AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAATGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
genomic: AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
EST: gi|193510785|gb|FK471259.1|FK471259
EST:     AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
genomic: AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
EST: gi|193616966|gb|FK571636.1|FK571636
EST:     AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATT
genomic: AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATT
EST: gi|208102897|gb|GD900887.1|GD900887
EST:     AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAATGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
genomic: AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
EST: gi|22541669|gb|BU091512.1|BU091512
EST:     AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
genomic: AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
EST: gi|192332258|gb|FK023907.1|FK023907
EST:     AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGG                         GAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT
genomic: AAATATAGACGGGATTCTTCTCCTCATTGGCAGTCATCAAAAAGAAAAGGtgaaataaat ... gtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacacactgtgctctcatggtaacaacctaacttgttttatctttgtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATTTTACGG
                         acctaac  putative branch site (score: 2)
                                   ttttatctttgtcc  putative PPT
                                   ttttatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttaaattctatatactcagatactcaatgatgattttgttctctacacactgtgctctcatggtaacaacctaacttgttttatctttgtccaacaggGAGAGCCTCCCAGACAATTTAAGATTGTTATTCCAAAAATACCAGCTTATTTTACGG

- - - - - - - - - - - - - - -tgatgat
- - - - - - - - - - - - - - - - - - - - - - -tacacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaacc