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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactatttaatatttaaatgtgtttattactgtctatattgatattcaagttagaaaacggaaagatcacgtaacagaaactaaaggaaaatagatgaagcttcaggtttaagttggctaattcctaattcattatcattattttgtggggtacag

Basic information

species Glycine max
transcript GLYMA05G37790.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G37790.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv02s0025g03460.t01 (Vitis vinifera), 5'ss of exon 3
TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactatttaatatttaaatgtgtttattac-tgtctatattgatattcaagttagaaaacggaaagatcacgtaacagaaactaaaggaaaatagatgaagcttcaggtttaagttggctaattcctaattcattatcattattttgtggggtacag
  || ||||||||||| | ||| || || ||||||||||| |||||||||||||  ||||||    |  |   |   |||||  ||  |  || ||||||  |    ||  |   | | |    ||   |    || | | | | |   |||                                                          
CACTCGATGCAGCTACAAGGGGAAACCGGTATATAAATTCATGTCTCAGgtatt-ttatttagatgtccagcattggtattatgtgcttgcatggatattggatactgatgaaacataaact--gtcggaagtgctgaggcatagtttgtga----------------------------------------------------------
















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|298180421|gb|HO021974.1|HO021974
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298194087|gb|HO040735.1|HO040735
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298186971|gb|HO034064.1|HO034064
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298172172|gb|HO021764.1|HO021764
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGTGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298190010|gb|HO032131.1|HO032131
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|7587907|gb|AW703713.1|AW703713
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|208306734|gb|GE107935.1|GE107935
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|192323699|gb|FK016005.1|FK016005
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298193164|gb|HO033598.1|HO033598
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|151393978|gb|EV263849.1|EV263849
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298177812|gb|HO027365.1|HO027365
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298182266|gb|HO026441.1|HO026441
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298191564|gb|HO039043.1|HO039043
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298181858|gb|HO026033.1|HO026033
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|192296579|gb|FG989856.1|FG989856
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|192298253|gb|FG992073.1|FG992073
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|192326762|gb|FK018544.1|FK018544
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298163031|gb|HO011764.1|HO011764
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAGTT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298196114|gb|HO044505.1|HO044505
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGCCTCGCCTCTCAATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT
EST: gi|298188535|gb|HO035228.1|HO035228
EST:     TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAG                         ATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCGATT
genomic: TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactat ... tggggtacagATTGAATGAGGAGATGAAGAGTGTTGATGGTCTCGCCTCTCAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTTGATGCAGCTACCAAGGGGAATCGCTATATAAATTCCTGTCTCAGgtattactatttaatatttaaatgtgtttattactgtctatattgatattcaagttagaaaacggaaagatcacgtaacagaaactaaaggaaaatagatgaagcttcaggtttaagttggctaattcctaattcattatcattattttgtggggtacag

- - - - GCAGCT