Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGATTATGGGGATAACATATGTGGTGCAGTACTTAGCATTCGATTCAATGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattatggaccctatttgtatttacatatgtacattatgcacgtccttagtattgttccttttttttagaagcatccttagtattgttcctgctttctcattacag

Basic information

species Glycine max
transcript GLYMA16G27010.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G27010.2 (Glycine max), 5'ss of exon 5
lower sequence: AT5G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
----TTGGATTATGGGGATAACATATGTGGTGCAGTACTTAGCATTCGATTCAATGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgca--ttattatggaccctatttgtatttacatatgtacattatgcacgtcctta-gtattgttccttttttttagaagcatccttagtattgttcctgctttctcattacag
     | ||| |||  |||||||||||||| |||||||| ||  | || ||||| ||||| ||  | ||||| ||||||||||||||||| |||||||||||  | |   | ||    |    |  ||| | |     | | | ||      || ||||   | ||     ||||  |  ||                                   
CCAGCTTGATGATGCTGATAACATATGTGGGGCAGTACTGAGTGTCCGTTTCAACGAGGACATCATTAGTGTATGGAATCGCAATGCTTCTGACCATCAGgtgagaaaactgttcacaagaagaactgtctctctccctctccttttgattggtacttacacagtgcaatgttttccttaaacag--------------------------------

upper sequence: GLYMA16G27010.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0007g07290.t01 (Vitis vinifera), 5'ss of exon 5
----TTGGATTATGGGGATAACATATGTGGTGCAGTACTTAGCATTCGATTCAATGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattatggaccctatttgtatttacatatgtacattatgcacgtccttagtattgttccttttttttagaagcatccttagtattgttcctgctttctcattacag
     | |||||||| ||||||||||||||||| ||||| |||||||| |||||||| |||||||||||||| |||||||||||||| || || ||||||||  | |  |  |   |  | | |  ||||   |||| | |  | ||   ||    | ||||||  | ||  ||||    ||   ||||                         
CCAACTTGATTATGGTGATAACATATGTGGTGCTGTACTAAGCATTCGTTTCAATGAAGATATATTGAGTGTGTGGAATCGCAATGCATCCGATCATCAGgtcagta--accactaattc-actactattctgatattttc--tgtgtttgtgtacaatattgtgaccttgatttactttcaa--ttag-------------------------
















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|8283787|gb|BE021346.1|BE021346
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCA--T-G                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|37997491|gb|CF809080.1|CF809080
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGCTG                         N-T--A-TGGCTCTGTGAGATTCAATCAAACGTCA
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCA
EST: gi|58021292|gb|CX708033.1|CX708033
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|31468281|gb|CD410309.1|CD410309
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|13788932|gb|BG651523.1|BG651523
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGTGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|192299481|gb|FG990790.1|FG990790
EST:     TGAG-ATAT-T-GAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|207680098|gb|GD663712.1|GD663712
EST:     AATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: AATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|151394261|gb|EV264132.1|EV264132
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|10255799|gb|BE823565.1|BE823565
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|208024801|gb|GD825131.1|GD825131
EST:     AATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: AATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|192295554|gb|FG988128.1|FG988128
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGAT-CAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|254329999|gb|GR839552.1|GR839552
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|37995997|gb|CF807586.1|CF807586
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|19269428|gb|BM885684.1|BM885684
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATC
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATC
EST: gi|37994217|gb|CF805963.1|CF805963
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|16105854|gb|BI893594.1|BI893594
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|58020447|gb|CX707189.1|CX707189
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|58017961|gb|CX704703.1|CX704703
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|19346443|gb|BM891323.1|BM891323
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATC
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATC
EST: gi|31464192|gb|CD406220.1|CD406220
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|57575959|gb|CX548930.1|CX548930
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|193552841|gb|FK505706.1|FK505706
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|207834470|gb|GD807715.1|GD807715
EST:     CGCAATGCTTCGGACCATCA----G                         GCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: CGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
EST: gi|151413065|gb|EV282873.1|EV282873
EST:     TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGG---                         -CTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT
genomic: TGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattat ... ctcattacagGCTGTAATGGCTCTGAGAGATTCAATCAAACGTCACTTAAAGCTTCCACAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGATTATGGGGATAACATATGTGGTGCAGTACTTAGCATTCGATTCAATGAGGATATATTGAGTGTCTGGAATCGCAATGCTTCGGACCATCAGGTTGgcattattatggaccctatttgtatttacatatgtacattatgcacgtccttagtattgttccttttttttagaagcatccttagtattgttcctgctttctcattacag

- - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT