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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCACCCTAGTTGCATTACAAGATATAACTTTAGAGAAAATATTTGATGATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttttttttttgtattaaagcatgtattccacttccataaggcttgctattgaatgttattttttttgggttaattaagtttttagtccttcaa...

Basic information

species Glycine max
transcript GLYMA07G01940.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01940.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv09s0002g03740.t01 (Vitis vinifera), 5'ss of exon 17
GACCACCCTAGTTGCATTACAAGATATAACTTTAGAGAAAATATTTGATGATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttttttttttgtattaaag---catgtattccacttc----cataaggcttgctattgaat-gttattttttttgggttaattaagtttttagtccttcaa
||| ||| | |||||  | ||||| || ||||| ||||| ||||| |||||||||||||| || | |||||  |||||||| || ||||| || |||||||||| |   |   |||| |||   |    | | ||||  | ||     | |  || ||| | | |    |||   ||   || |  ||||   |||  | |       
GACAACCTTGGTTGCCCTGCAAGACATTACTTTGGAGAAGATATTCGATGATCATGGACGCAAGACTCTCTGCTCAGAGTTCCCTCAGATAATGCAACAGgtcttccagtagcttttatatgggatttccttttattttatttttccacgttgggtttgatgtgggggagtttgattcgctgtggcaatttcatttc-att-------
















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|208160247|gb|GD953503.1|GD953503
EST:     TTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: TTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|254347694|gb|GR853943.1|GR853943
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|58020029|gb|CX706771.1|CX706771
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|208055428|gb|GD854579.1|GD854579
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|193655293|gb|FK596583.1|FK596583
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATACAACAG                         GGTTTTGCATGTCTTCAAGGTGGTATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|208142450|gb|GD933992.1|GD933992
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATACAACAG                         GGTTTTGCATGTCTTCAAGGTGG
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGG
EST: gi|209708424|gb|BW665399.1|BW665399
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|193373834|gb|FK339808.1|FK339808
EST:     AGAGTTTCCACAGATTATACAACAG                         GGTTTTGCATGTCTTCAAGGTGGTATTTGTCTTTCAAGCATGGGGCGACCT
genomic: AGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|22930734|gb|BU547873.1|BU547873
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|208115539|gb|GD909958.1|GD909958
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATACAACAG                         GGTTTTGCATGTCTTCAAGGTGGTATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|31471717|gb|CD413745.1|CD413745
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|208076282|gb|GD878179.1|GD878179
EST:     ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: ATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|193326068|gb|FK292285.1|FK292285
EST:     AGAGTTTCCACAGATTATCCAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: AGAGTTTCCACAGATTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
EST: gi|193408563|gb|FK374121.1|FK374121
EST:     TTATACAACAG                         GGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT
genomic: TTATCCAACAGgtctactttt ... cttttggtagGGTTTTGCATGTCTTCAAGGTGGCATTTGTCTTTCAAGCATGGGGCGACCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACCACCCTAGTTGCATTACAAGATATAACTTTAGAGAAAATATTTGATGATCATGGACGAAAAATTCTCTTTTCAGAGTTTCCACAGATTATCCAACAGgtctactttttttttttgtattaaagcatgtattccacttccataaggcttgctattgaatgttattttttttgggttaattaagtttttagtccttcaa

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