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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttttcctgttgcttactaattatcgtgaactagtttaagtaacttcaaaaacatgagttgcattgatttttcttactcgggtgagcttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAAGGAACTTGCCCAATTGCCAAGTCTTATAGAGCTGTAAGCAATGTTCTAC

Basic information

species Glycine max
transcript GLYMA09G34650.2
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|151395813|gb|EV265690.1|EV265690
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|21677781|gb|BQ630132.1|BQ630132
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|9987491|gb|BE661599.1|BE661599
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|20812607|gb|BQ297085.1|BQ297085
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|209720587|gb|BW654440.1|BW654440
EST:     AGAAGCAGAAG-ATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|27426597|gb|CA938117.1|CA938117
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|151400423|gb|EV270237.1|EV270237
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|298167526|gb|HO012789.1|HO012789
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCA
EST: gi|24205459|gb|BU964712.1|BU964712
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTAT
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTAT
EST: gi|20812455|gb|BQ296933.1|BQ296933
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|27809213|gb|CB063635.1|CB063635
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA
EST: gi|15288136|gb|BI472027.1|BI472027
EST:     AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGGATACTCACCTCAG                         AATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGNCAAA
genomic: AGAAGCAGAAGAATTCCGAATCATCAAATAAAAAGGAATACTCACCTCAGgtaaacattt ... ttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttcaaaaacatgagttgcattgatttttcttactcgggtgagcttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAAGGAACTTGCCCAATTGCCAAGTCTTATAGAGCTGTAAGCAATGTTCTAC
                            ttcttac  putative branch site (score: 2)
                                            cttcatttc  putative PPT
                    attgatttttctta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcttttcctgttgcttactaattatcgtgaactagtttaagtaacttcaaaaacatgagttgcattgatttttcttactcgggtgagcttcatttcagAATGGAGATGTATCAAAGCATGAGGCACTTGGAAATGAATGGTTGGCCAAAGGAACTTGCCCAATTGCCAAGTCTTATAGAGCTGTAAGCAATGTTCTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA