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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgattgaccatctctctgataacattatattgacttcctcttttcttttgcatcaaattcttatctattgttgctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGTGCTTCATCTTAAATTACCCTTGAAGCTACTGGATGACCTTCATTCCTGA

Basic information

species Glycine max
transcript GLYMA18G01110.1
intron # 6
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|14011275|gb|BG726206.1|BG726206
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCA
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCA
EST: gi|305377802|gb|HO652033.1|HO652033
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|192318954|gb|FK009034.1|FK009034
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGG-CGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|8402097|gb|BE057731.1|BE057731
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|151411461|gb|EV281272.1|EV281272
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|20814017|gb|BQ298495.1|BQ298495
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|15815139|gb|BI787414.1|BI787414
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAAGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCT
EST: gi|192330707|gb|FK022320.1|FK022320
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAAGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|192297172|gb|FG988268.1|FG988268
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|22932992|gb|BU550131.1|BU550131
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|192318955|gb|FK009035.1|FK009035
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTTTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|6072248|gb|AW101635.1|AW101635
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|37994714|gb|CF806336.1|CF806336
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|21888291|gb|BQ741504.1|BQ741504
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCT
EST: gi|209706839|gb|BW653131.1|BW653131
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|16282501|gb|BI945051.1|BI945051
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGGCAACAAGCA-GAAGAAGGGCGCTC
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGG-CAACAAGCAAGAAGAAGGGCGCTC
EST: gi|151394964|gb|EV264835.1|EV264835
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|209706840|gb|BW653132.1|BW653132
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|151400770|gb|EV270584.1|EV270584
EST:     GCCACATTGAACTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|18726863|gb|BM523799.1|BM523799
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|192298114|gb|FG991394.1|FG991394
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|254320686|gb|GR827135.1|GR827135
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|193409340|gb|FK374590.1|FK374590
EST:     TGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: TGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|9258634|gb|BE346781.1|BE346781
EST:     GCCACATCGAGCTGATATTATCTGAGATGGAAGAGCCGGTGAAGAATGAT                         GCTGAGACTCAATAGGCAACAAGCAAGAAGA-GGGCG
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCG
EST: gi|192322932|gb|FK016663.1|FK016663
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|22525186|gb|BU083997.1|BU083997
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|192330708|gb|FK022321.1|FK022321
EST:     GCCACATTGAGCTGATATTATTTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTTTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|21256455|gb|BQ453343.1|BQ453343
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCTANTTG-CTACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGG
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAA-TTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGG
EST: gi|6566102|gb|AW233862.1|AW233862
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
EST: gi|21887436|gb|BQ740649.1|BQ740649
EST:     GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG                         GCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT
genomic: GCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAGgtaatgattg ... gctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgacttcctcttttcttttgcatcaaattcttatctattgttgctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGTGCTTCATCTTAAATTACCCTTGAAGCTACTGGATGACCTTCATTCCTGA
 tattgac  putative branch site (score: 2)
                                           ttgctctt  putative PPT
                           aaattcttatctatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatgattgaccatctctctgataacattatattgacttcctcttttcttttgcatcaaattcttatctattgttgctcttgtagGCTGAGACTCAATTGGCAACAAGCAAGAAGAAGGGCGCTCTTCGAAGTGGTGCTTCATCTTAAATTACCCTTGAAGCTACTGGATGACCTTCATTCCTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC