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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTTTTTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaataatcggctttcacttagcaacttaattgtttacttttgggattggctcgctgacaaatattttcttttatgttgtttatag

Basic information

species Glycine max
transcript GLYMA11G05080.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G05080.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ23242 (Selaginella moellendorffii), 5'ss of exon 2
CCTTTTTTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaataatcggctttcacttagcaacttaattgtttacttttgggattggctcgctgacaaatattttcttttatgttgtttatag
||| || |||||||| || |||||||||||  |||||||||| || || ||||| ||||| |||||||| ||     | ||||||||| | | | |   || |    | ||   ||   || |   | |   ||||  || |                                
CCTCTTCTTCAAGCAAGAGATGGAGTTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCTgtaagttcca-agttctctcttttctcgctctttcgctgatggttatc--gattttctag--------------------------------
















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|31464936|gb|CD406964.1|CD406964
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|151410326|gb|EV280141.1|EV280141
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|16349420|gb|BI975015.1|BI975015
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|209716493|gb|BW676943.1|BW676943
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|151405432|gb|EV275246.1|EV275246
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|193625198|gb|FK577382.1|FK577382
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACTGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|58023255|gb|CX709996.1|CX709996
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|254344316|gb|GR851119.1|GR851119
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|58016934|gb|CX703676.1|CX703676
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|120492024|gb|EH220191.1|EH220191
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|151412616|gb|EV282428.1|EV282428
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|254344317|gb|GR851120.1|GR851120
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|207732378|gb|GD708551.1|GD708551
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACTGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|192323170|gb|FK017396.1|FK017396
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|298177742|gb|HO023761.1|HO023761
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|254335359|gb|GR846856.1|GR846856
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|58022559|gb|CX709300.1|CX709300
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|57574961|gb|CX547936.1|CX547936
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|18733799|gb|BM527816.1|BM527816
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|192307680|gb|FK001624.1|FK001624
EST:     GACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: GACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|193692589|gb|FK629360.1|FK629360
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|151395085|gb|EV264956.1|EV264956
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|151401783|gb|EV271596.1|EV271596
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|254335360|gb|GR846857.1|GR846857
EST:     GACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATCCCAACT
genomic: GACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|298167845|gb|HO013108.1|HO013108
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|120491652|gb|EH219819.1|EH219819
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|58023508|gb|CX710249.1|CX710249
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|10235042|gb|BE803930.1|BE803930
EST:     GGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: GGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|9203981|gb|BE330205.1|BE330205
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|192301117|gb|FG988012.1|FG988012
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|58022262|gb|CX709003.1|CX709003
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|120491738|gb|EH219905.1|EH219905
EST:     GTAAATGTAGTTGCT                         ACCGGTGGATATAGTGAGGACATGATTCCAACT
genomic: GTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT
EST: gi|151409006|gb|EV278814.1|EV278814
EST:     TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT                         ACCGGTGGATATAATGAGGACATGATTCCAACT
genomic: TAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaa ... ttgtttatagACCGGTGGATATAGTGAGGACATGATTCCAACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTTTTTTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCTgtaagtacaataatcggctttcacttagcaacttaattgtttacttttgggattggctcgctgacaaatattttcttttatgttgtttatag

- - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA