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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTGGTGTGGAGAAAACAGCATCTCAACAGGAAATAAAGAAGGCATACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtctagtgtttcctgttgtcctctaattgatttattgaaattatagatgttagcggttgtaattgatcatcttttacag

Basic information

species Glycine max
transcript GLYMA10G12350.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G12350.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G129987_T01 (Zea mays), 5'ss of exon 2
GTTCTTGGTGTGGAGAAAACAGCATCTCAACAGGAAATAAAGAAGGCATACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtctagtgtttcctgttgtcctctaattgatttattgaaattatagatgttagcggttgtaattgatcatcttttacag
 |  | || || ||||| || || || ||||| |||||||||||||||||  |||| |||||  || | || ||||| |||||||| ||||| ||||||||    | || ||         || |  | |  |  | |  || |   |  |     |  |   | |||| | ||     |  |||
ATCTTGGGAGTTGAGAAGACTGCTTCACAACAAGAAATAAAGAAGGCATATCACAAATTGGCTCTGCGCCTCCATCCAGATAAGAATCCTGGGGATGAGgtaggatctcaagcacaaagcattatttttt--tccactcgtttag--tgcaatgtatctcaaatataat-gttctgtgctaccag

upper sequence: GLYMA10G12350.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 5'ss of exon 2
GTTCTTGGTGTGGAGAAAACAGCATCTCAACAGGAAATAAAGAAGGCATACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgt-tttg---tctagtgtttcc----tgttgtcctctaattgatttattgaaattatagatgttagcggttgtaattgatcatcttttacag--------
|||||||||||||| || || |||||||| |||||||| ||||| || ||||| |||||||||||| |||| ||||||||||| || |||||||||||||||  ||||   |||| || | ||    |  | | ||| | |  ||   ||| ||   | | | |    |||||| |    |  | |||| |          
GTTCTTGGTGTGGAAAAGACGGCATCTCAGCAGGAAATTAAGAAAGCTTACTATAAGTTGGCATTGCGGCTCCATCCTGATAAAAATCCTGGTGATGAGgtgcatttgatttctaatgatgccaaaatcctattctcca-tatatccgttgcaagggtggttttc--tggttgttaccctttgtttttttccctcatgtag
















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|151412912|gb|EV282724.1|EV282724
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|151396151|gb|EV266028.1|EV266028
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|41145363|gb|CK605574.1|CK605574
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|193395879|gb|FK364448.1|FK364448
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|298194691|gb|HO043163.1|HO043163
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAATTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|192323158|gb|FK017384.1|FK017384
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|151402844|gb|EV272657.1|EV272657
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCGAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|151407863|gb|EV277678.1|EV277678
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|193579583|gb|FK536352.1|FK536352
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGG
EST: gi|207703247|gb|GD685305.1|GD685305
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCAG
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCAG
EST: gi|207729869|gb|GD706421.1|GD706421
EST:     ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAG                         GAAGCTAAAGCAAAGTTTCA
genomic: ACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtc ... tcttttacagGAAGCTAAAGCAAAGTTTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTTGGTGTGGAGAAAACAGCATCTCAACAGGAAATAAAGAAGGCATACTACAAGTTGGCATTGAGGCTGCATCCTGATAAGAACCCTGGTGATGAGgtgttttgtctagtgtttcctgttgtcctctaattgatttattgaaattatagatgttagcggttgtaattgatcatcttttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC