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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCCTCACAAGTGCTGTTCCACAGATAAAACCTGGGTTTGATCCTACCAAAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattacagtttctgcattattcttaagtatttttttaaatttatccccctttttattcatattttaatgatttttacatattag

Basic information

species Glycine max
transcript GLYMA18G39930.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G39930.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0007g00530.t01 (Vitis vinifera), 5'ss of exon 2
AATCCTCACAAGTGCTGTTCCACAGATAAAACCTGGGTTTGATCCTACCAAAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgta-ctattacagtttctg-cattattcttaagtatttttttaaatttatccccctttttattcatattttaa--tgatttttacatattag
||| |||||||||||||| ||   ||| ||||||||||||||||| || ||||| ||||| |||||||| |||||||| || || || | ||||||||||||| ||| |    | ||||   |||   |||   | ||| |    |  ||    |||||   | || ||  ||  |   ||||  || ||||
AATTCTCACAAGTGCTGTGCCTAGGATGAAACCTGGGTTTGATCCAACTAAAGGTCAAAGGCCAGAGTTTTATTTTGAAGAAGGAGCCTTTCCTGAGCAGgtaactacttagttatctgattttaggattatagaatttctgttgtccatgtttcttttgccttatgttgaaagttttcttttttatgttag
















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|208333137|gb|GE127414.1|GE127414
EST:     TGCATATCCTGAGCAG                         GTCGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: TGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193436727|gb|FK399528.1|FK399528
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|151397652|gb|EV267525.1|EV267525
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193333926|gb|FK301314.1|FK301314
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|207782942|gb|GD754527.1|GD754527
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGTGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|58019388|gb|CX706130.1|CX706130
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193436041|gb|FK401157.1|FK401157
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAG-AAAAATCAAATAGATGCCG
EST: gi|193349121|gb|FK315299.1|FK315299
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|298174286|gb|HO017622.1|HO017622
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGTTGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|7028397|gb|AW458180.1|AW458180
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|213620500|gb|DB957344.1|DB957344
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193354431|gb|FK321179.1|FK321179
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193726451|gb|FK661137.1|FK661137
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|58022869|gb|CX709610.1|CX709610
EST:     AAGGACAAAGACCAGAGTTTTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193320346|gb|FK283991.1|FK283991
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|58016336|gb|CX703078.1|CX703078
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|17023106|gb|BM094140.1|BM094140
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193400899|gb|FK368820.1|FK368820
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTG
EST: gi|208073385|gb|GD867302.1|GD867302
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193415735|gb|FK381437.1|FK381437
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|58019799|gb|CX706541.1|CX706541
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|207820378|gb|GD792832.1|GD792832
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|192327079|gb|FK015471.1|FK015471
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
EST: gi|193429904|gb|FK395552.1|FK395552
EST:     AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattac ... tacatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATCCTCACAAGTGCTGTTCCACAGATAAAACCTGGGTTTGATCCTACCAAAGGACAAAGACCAGAGTTCTATTTTGATGATGGTGCATATCCTGAGCAGgtactattacagtttctgcattattcttaagtatttttttaaatttatccccctttttattcatattttaatgatttttacatattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG