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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCGACAATTCTGAATGGATGCGTAACGGAGATTACTCTCCTTCTCGATTTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaagccaaaccgtacagtattatgcttttacatttacccccctctctatttttgtatttgttatcatttcattaatttatttagttttggaaa...

Basic information

species Glycine max
transcript GLYMA11G08290.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G08290.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 5'ss of exon 2
TATCGACAATTCTGAATGGATGCGTAACGGAGATTACTCTCCTTCTCGATTTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaagccaaaccgtacagtattatgcttttacatttacccccctctctatttttgtatttgttatcatttcattaatttatttagttttggaaa-------
|||||||||||| ||||||||||| || || ||||| |||||  || ||||||| |||||||| ||||| || ||||| || || || ||||| || |||||    |  |  |   ||||     ||| ||     | |   |          ||     | |    | |  |    |||     || ||||    | |        
TATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTGGAGCTAAGACTCAGgtc---tcgatgccttccgtttg--attgtgaaaaaaaaaaaaaggaagaagataaaagagaagaaataa--aggaaattttggaatatagtcgcaggagatttttt
















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|193722335|gb|FK656283.1|FK656283
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACA
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACA
EST: gi|151409810|gb|EV279618.1|EV279618
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|193548323|gb|FK505316.1|FK505316
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAA
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAA
EST: gi|208055142|gb|GD852375.1|GD852375
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|193666070|gb|FK610519.1|FK610519
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAAT-CAGTGGGAGTTCTCACAATGGCTGGGAAA
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAA
EST: gi|14258768|gb|BG881676.1|BG881676
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|213600544|gb|DB960092.1|DB960092
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|213605510|gb|DB970667.1|DB970667
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|298183378|gb|HO028591.1|HO028591
EST:     TTCAAGCTCAATCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|298165035|gb|HO011084.1|HO011084
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|213596699|gb|DB964046.1|DB964046
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|207712448|gb|GD693842.1|GD693842
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGC
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGC
EST: gi|4283205|gb|AI440627.1|AI440627
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|208114435|gb|GD908518.1|GD908518
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|208274474|gb|GE070164.1|GE070164
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTTCACAATGGCTGGGAAAGGCGT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCT-CACAATGGCTGGGAAAGGCGT
EST: gi|208113075|gb|GD912450.1|GD912450
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGG
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGG
EST: gi|208054615|gb|GD850258.1|GD850258
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAA
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAA
EST: gi|193724280|gb|FK657540.1|FK657540
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAA
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAA
EST: gi|207745371|gb|GD716327.1|GD716327
EST:     TTCAAGCTCAAGCAGACGCTGTCGATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGG
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGG
EST: gi|298162986|gb|HO011719.1|HO011719
EST:     TTCAAGCTCAAACAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|209715414|gb|BW684698.1|BW684698
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|193545854|gb|FK501309.1|FK501309
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAA
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAA
EST: gi|207813620|gb|GD783287.1|GD783287
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGG
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGG
EST: gi|193451300|gb|FK420548.1|FK420548
EST:     GGTGCTAAAACGCAG                         TCTAATCCGG-AAATACATTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: GGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|151397896|gb|EV267769.1|EV267769
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
EST: gi|208253497|gb|GE054285.1|GE054285
EST:     TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAG                         TCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT
genomic: TTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaa ... atgcatacagTCTAATCCGGAAAATACAGTGGGAGTTCTCACAATGGCTGGGAAAGGCGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCGACAATTCTGAATGGATGCGTAACGGAGATTACTCTCCTTCTCGATTTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCGGTGCTAAAACGCAGgttaggttaagccaaaccgtacagtattatgcttttacatttacccccctctctatttttgtatttgttatcatttcattaatttatttagttttggaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccctc