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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTTAGTGATCCTCGAGATGCTGATGATGCTAGATACAACCTGGATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaattacttcccttcatggtttacctttctattttattttattttttcagaattgcttatctcatttgttactagcgatcaaagggatattttccg...

Basic information

species Glycine max
transcript GLYMA03G33270.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G33270.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0040g02860.t01 (Vitis vinifera), 5'ss of exon 2
GAATTTAGTGATCCTCGAGATGCTGATGATGCTAGATACAACCTGGATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaattacttcccttcatggtttacctttcta--ttttattttattttt---tcagaattgcttatctcatttgttactagcgatcaaagggatattttccg
||||| |||||||| ||||||||||||||||| ||||| ||| |  |||| || ||| |||| ||||||||||| |||||||||||||| || |||||| |   |     | |||||  |||   |  |||  ||| |    || |||   |  ||| |    | ||| |     | | ||      | | ||  ||    
GAATTCAGTGATCCCCGAGATGCTGATGATGCAAGATATAACTTAAATGGACGAGATTTTGATGGAAGTCGTATCATTGTGGAATTTGCGAAAGGGgtaagttgtgtgaactttcatactttctgtgactaaatttgagaacatgtttatgttggaagtatgcaactcttaaccaaatggct-ctggatgaatgctt----
















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|193696875|gb|FK638017.1|FK638017
EST:     TATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: TATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|254344581|gb|GR855452.1|GR855452
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|192331339|gb|FK023808.1|FK023808
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|151411040|gb|EV280851.1|EV280851
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|26058479|gb|CA801393.1|CA801393
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|193684971|gb|FK626495.1|FK626495
EST:     TATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: TATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|254332768|gb|GR846599.1|GR846599
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|120534327|gb|EH262460.1|EH262460
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|192320086|gb|FK014170.1|FK014170
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|192299767|gb|FG993317.1|FG993317
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|192328414|gb|FK020125.1|FK020125
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|7146149|gb|AW508071.1|AW508071
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|7692902|gb|AW761001.1|AW761001
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|151398264|gb|EV268142.1|EV268142
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
EST: gi|16347699|gb|BI973294.1|BI973294
EST:     ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGG                         GGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT
genomic: ATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaatta ... aattaatcagGGTCCTCGTGGTTCCCGGGACCGGGAATATATGGGTCGGGGTCCACCTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATTTAGTGATCCTCGAGATGCTGATGATGCTAGATACAACCTGGATGGTCGTGATGTTGAAGGAAGTCGTATTATTGTGGAATTTGCCAAGGGGgtaggaattacttcccttcatggtttacctttctattttattttattttttcagaattgcttatctcatttgttactagcgatcaaagggatattttccg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcccttc