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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGTATATCCTTCCAAATATAGCTGAAAGAAATTTACGACGATTTGCCAATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaaccctttccactacctaattaagatttcattactgtcagagctcatgtgaaaagttttaatatttaaacattattttaaactaaataaaag...

Basic information

species Glycine max
transcript GLYMA16G31860.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G31860.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv16s0100g01300.t01 (Vitis vinifera), 5'ss of exon 12
TGGGTATATCCTTCCAAATATAGCTGAAAGAAATTTACGACGATTTGCCAATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaaccctttccactacctaatta-agatttcattactgtcag--agctcatgtgaa---aagtttt----aatatttaaacattattttaaactaaataaaag-------------------------------------------------------------------------------
|| |||||||||||| || || ||||||||| | || || ||||||||||||||||||| |||||| ||  |  | ||| |  |  |||| || || ||||||   ||   | ||   |||   | |||  | ||||  |||   |     |  |  | | ||   ||||| |    || || | |  | |  | | ||  |||| | ||                                                                               
TGAGTATATCCTTCCTAAGATCGCTGAAAGAGACTTGCGGCGATTTGCCAATTTGCGTTCAACTTCTTCAAACTTGGGAATTCATTTTCCGTTGCACGAGgtatgactc-tctttgtgactttttgattctatatttttttatccttgtgtaatttgtttaaattgaagttctgaagaaaatctcatgagtcctctgaataaaattatagtagcacaagggtgtgtgaggacatcccatgaaatatatgattgcttatttatcggctgaaaattttttccatgtcacag
















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|193365547|gb|FK332334.1|FK332334
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|208119644|gb|GD914301.1|GD914301
EST:     ATTCGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|207736233|gb|GD711314.1|GD711314
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|208027392|gb|GD825818.1|GD825818
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAA                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGC
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGC
EST: gi|193672847|gb|FK619843.1|FK619843
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|193402040|gb|FK369401.1|FK369401
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|208193328|gb|GD990295.1|GD990295
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|208276575|gb|GE076997.1|GE076997
EST:     AACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: AACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|208226795|gb|GE021936.1|GE021936
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|193727273|gb|FK666269.1|FK666269
EST:     TTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: TTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|207710468|gb|GD690704.1|GD690704
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCCTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|208254446|gb|GE052154.1|GE052154
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCCTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|193633885|gb|FK582029.1|FK582029
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|208197780|gb|GE001158.1|GE001158
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|193565849|gb|FK523218.1|FK523218
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACC-TCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAACTCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|193358758|gb|FK328436.1|FK328436
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|207773278|gb|GD743184.1|GD743184
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
EST: gi|207794518|gb|GD767167.1|GD767167
EST:     ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAG                         ATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA
genomic: ATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaa ... ccgatcacagATCCCTGTGAAGTGTCCTGTGTCAGAAATCATTAAGAGCCGAAGAGTTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGTATATCCTTCCAAATATAGCTGAAAGAAATTTACGACGATTTGCCAATTTGCGTTTAACTTCATCTGAAGTTGGACTGAACCTTCCTTTACATGAGgtactgctaaccctttccactacctaattaagatttcattactgtcagagctcatgtgaaaagttttaatatttaaacattattttaaactaaataaaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaaa