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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgttgaagttatggctttgtgaattattgttctctatgctcttgttttttctttctgatttaatcaagaaggtaactagtcttgactcaaaggtaaaaaaaaaaaatagtccttgtgcttctcctgttttcatgatcttattctttgtttgtttacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAATATGATGGAACTGGGCACCCTCAAGGGCAAGAAAACATATTCTTTTAAG

Basic information

species Glycine max
transcript GLYMA18G48070.1
intron # 2
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|308098506|gb|HO760247.1|HO760247
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|151394924|gb|EV264795.1|EV264795
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|151394860|gb|EV264731.1|EV264731
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|151399513|gb|EV269384.1|EV269384
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|192324207|gb|FK017938.1|FK017938
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|192330671|gb|FK021976.1|FK021976
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGGGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|192328659|gb|FK023159.1|FK023159
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|18041322|gb|BM309616.1|BM309616
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|254337009|gb|GR843188.1|GR843188
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|23727026|gb|BU761526.1|BU761526
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|151411441|gb|EV281252.1|EV281252
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         TGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|192323750|gb|FK016056.1|FK016056
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|151400648|gb|EV270462.1|EV270462
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGTTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|22525062|gb|BU083873.1|BU083873
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|192320251|gb|FK014251.1|FK014251
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|6072788|gb|AW102175.1|AW102175
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|209717487|gb|BW671462.1|BW671462
EST:     GAAGTTGCTTCAAAAATCATTATGATTTGCTTCTGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|9563837|gb|BE473346.1|BE473346
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|192328864|gb|FK019647.1|FK019647
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAGT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|209697524|gb|BW670025.1|BW670025
EST:     GAAGTTGCTTCAAAAATCATTATGATTTGCTTCTGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT
EST: gi|192298698|gb|FG990979.1|FG990979
EST:     GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTG                         AGGAATCGAGAAGAAGTGATTCGGGAGACGATGGAAATGGAGTTGGAAAAT
genomic: GAAGTTGCTTCAAAAATCATTATGATTCGCTTCCGAATCAGAGGTGCTTGgtaagttgtt ... tacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtccttgtgcttctcctgttttcatgatcttattctttgtttgtttacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAATATGATGGAACTGGGCACCCTCAAGGGCAAGAAAACATATTCTTTTAAG
                                ttctttgtttgttt  CT-rich tract
                             ttattcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttgttgaagttatggctttgtgaattattgttctctatgctcttgttttttctttctgatttaatcaagaaggtaactagtcttgactcaaaggtaaaaaaaaaaaatagtccttgtgcttctcctgttttcatgatcttattctttgtttgtttacgactcagAGGAATCGAGAAGAAGTGATTCAGGAGACGATGGAAATGGAGTTGGAAAATATGATGGAACTGGGCACCCTCAAGGGCAAGAAAACATATTCTTTTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA