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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggatttaaaactaaaagatagcggttactttctctttgatgtacctgattgttatgattttgttcccctaccttttgtttttgaacaaagataaat...

Basic information

species Glycine max
transcript GLYMA08G18110.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18110.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv19s0027g00760.t01 (Vitis vinifera), 5'ss of exon 2
GTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggatttaaaactaaaagatagcggttactttctctt--tgatgtacctgattgttatgattttgttcccctaccttttgtttttgaacaaagataaat
|| ||||| |||| ||| ||||| ||| | ||||||||||| |||||||| || |||||||||||||| ||||||||||||||||| |||||  | | |              || || |||  | ||  ||   |    |||| |   ||  || ||    ||  | |  | ||          |  | 
GTCAAGTTTACAGTTGAGGAGCTTCGTAGGATTATGGACTACAAGCATAACATTCGTAATATGTCTGTTATTGCTCATGTTGATCATGgtattaaatcatcttatcctctcttcgctttcttcttattattggcatgtaggattatgg-gaagttcttgtgatagttctcatgttattcttgcagtcca-

upper sequence: GLYMA08G18110.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S431_2V6.1 (Physcomitrella patens), 5'ss of exon 2
GTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggatttaaaactaaaagatagcggttactttctctttgatgtacctgattgttatgattttgttcccctaccttttgttt-ttgaacaaagataaat
||||||||  ||||||| ||||| |||  |||||||||| | ||||| ||||| ||||| |||||||||||||| || ||||| ||||||| | ||   ||||||  |  ||| || |    | |  ||  | |  ||||      ||| ||  |     |   ||| |    ||   |   | | || 
GTGAAGTTTTCAGCTGAGGAGCTCCGTGCTATTATGGACAAGAAGCACAATATTCGTAACATGTCTGTCATTGCCCACGTTGACCACGgtacgtatcagaaactattacttagtggatttcctatgattactat-tctgacacaattgacttcatcgaattgaatttcgaaagttactctgtgttcaag

upper sequence: GLYMA08G18110.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ28367 (Selaginella moellendorffii), 5'ss of exon 2
GTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggatttaaaactaaaagatagcggttactttctctttgatgtacctgattgttatgattttgttcccctaccttttgtttttgaacaaagataaat
||||| ||||| || |||||||| || || || |||||| | ||||| || ||||| || |||||||| ||||||||||| ||||||||  ||  |||    ||   ||||      | | |||  |  | |  | ||  | | | |||  || ||| ||                            
GTGAAATTCACGGCAGAAGAGCTGCGCCGGATCATGGACAAGAAGCACAACATCCGGAACATGTCTGTGATTGCTCATGTCGATCACGg--tgagttt----cttctagattttccatccattcagta-gctaaagctcgtcgatctgaaatt-ttcgccag--------------------------

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|6667322|gb|AW278773.1|AW278773
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|209716827|gb|BW654346.1|BW654346
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|19269032|gb|BM885288.1|BM885288
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|33390610|gb|CA853805.1|CA853805
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|7684880|gb|AW755528.1|AW755528
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|120529990|gb|EH258124.1|EH258124
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|18040122|gb|BM308416.1|BM308416
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|18039669|gb|BM307963.1|BM307963
EST:     AGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: AGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|209709643|gb|BW661970.1|BW661970
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|213606494|gb|DB971118.1|DB971118
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|254325442|gb|GR838323.1|GR838323
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|5605835|gb|AI899933.1|AI899933
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|14259251|gb|BG882159.1|BG882159
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|213615259|gb|DB963453.1|DB963453
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|209701834|gb|BW661327.1|BW661327
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|209705768|gb|BW661436.1|BW661436
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|213607326|gb|DB967063.1|DB967063
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|254342547|gb|GR858709.1|GR858709
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|209724199|gb|BW658105.1|BW658105
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|209727731|gb|BW658470.1|BW658470
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|254342212|gb|GR853349.1|GR853349
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|209725229|gb|BW672704.1|BW672704
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|22931766|gb|BU548905.1|BU548905
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|6454158|gb|AW184906.1|AW184906
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|213592581|gb|DB961841.1|DB961841
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
EST: gi|213599515|gb|DB968340.1|DB968340
EST:     CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACG                         GAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC
genomic: CTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggattt ... tgaattacagGAAAATCAACCCTCACTGATTCTCTTGTGGCTGCTGCTGGTATTATTGCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGgtatggatttaaaactaaaagatagcggttactttctctttgatgtacctgattgttatgattttgttcccctaccttttgtttttgaacaaagataaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcccct