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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttctctttcctgactgaatttttataactaatatttttataattatttcccattgaaaattatattaagctatattgtttgttccttgtgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACCCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA

Basic information

species Glycine max
transcript GLYMA10G01280.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G01280.2 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g04340.1 (Oryza sativa), 3'ss of exon 11
--------------------------------------------------------------tcttctctttcctgactgaatttttataactaatat-ttttataattatttccca--ttgaaaattatattaagctat--attgtttgttccttg---tgctat-gcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACCCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA
                                                               | || || |  ||  |  |||||| ||| || |   |  || ||  ||   |    |||  || ||     || ||   |||||   || |||    ||| ||  |||  ||| || ||| | ||||| ||||| |||||||| ||||||||||| |||||| |||| || || |||| |||||| || ||||| |||||||   || 
gtgagtgttgtcgttgcactatttgagccaacaccattttttagagaaagttttagttcttggcatcactattgtg-ttacatttttctaattacttcatcatacaaacatgcactgccttgccaagtactagtagttacagattgtgcatttctttatttgccattacagTCGGAAGCATTGATCCATCCCTTCTTCGATGAACTCCGTGATCCAAACACCCGCTTACCGAACGGCCGTTTCCTTCCTCCTCTCTTCAACTTCAAGCCCC

upper sequence: GLYMA10G01280.2 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g19150.1 (Oryza sativa), 3'ss of exon 11
tcttctctttcctgactgaatttttataactaatatttttataattatttcccattgaaaattatattaagctatattgtttgttccttgtgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACCCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA
        |   |         | ||| |  ||   | || ||| | ||||    |    ||| ||   | ||   || |||  |||| |  |    ||| ||||||  ||  ||||||||||||| |||||||| || ||||||||| | ||| |||||||||| |||   ||||||||||| || || ||||   |  
-------gtaagtattaatgcatatatcaggaaatctcttgtaaatgtttctatgtactcattttac--atcttcctttttttctcctcgcac----cagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCTCGCTTACCAAATGGCCGTACTCTTCCCCCACTATTCAATTTCAAGCCTC

upper sequence: GLYMA10G01280.2 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G075992_T01 (Zea mays), 3'ss of exon 6
tcttctctttcctgactgaatttttataactaatatttttataattatttcccattgaaaattatattaagctatattgtttgttccttgtgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACCCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA
                      | | ||   || | ||             || ||| |  | | | |||  ||| | |||| |||  | | |||  ||| ||||||| ||  | |||||||||||||||||||||||  | |||||  | || ||||||||||| |||| ||||||||  ||||| || || | | | |
---------------------gtatgtattaaacacttcatcttgggaaatccgttgcacttaacaataa--tatttagtttcttctctct-cta-acagTTGGAGGCGTTAATCCATCCATTCTTTGATGAACTGCGGTACCCAAACTCACGTCTACCAAATGGCCGTTCCCTTCCCCATCTCTTCAATTTTAAACCTA

upper sequence: GLYMA10G01280.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 3'ss of exon 11
----tcttctctttcctgactgaatttttataactaatatttttataattatttcccattgaaaattatattaagctatattgtttgttccttgtgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACCCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA
    |  | |  ||||||   |||    | | |  |   ||      |   | | |  |  ||  | |  ||  |   |  ||||| ||  || | |||||||||||||||| ||| | ||||| || |||||||| || ||||| ||||| ||||| || |||||||| |||| |||||||||| | || |||||||   |  
tatatgctgtgattcctg---gaaggcatgtgaagacagttggatccaacctcttctttcaaacttgaatttttgacttgatgtttatttatt-ttctatgcagCTGGAGGCTTTGATCCATCCCTTTTTTGATGAGCTACGTGAGCCAAACACCCGTCTGCCAAATGGACGTTTCCTTCCCCCATTGTTCAACTTCAAGCCTC

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|208323313|gb|GE125650.1|GE125650
EST:     ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|208207665|gb|GE007586.1|GE007586
EST:     CTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: CTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|193510907|gb|FK471325.1|FK471325
EST:     ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|208280495|gb|GE075023.1|GE075023
EST:     ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|151393723|gb|EV263598.1|EV263598
EST:     ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|9983961|gb|BE658069.1|BE658069
EST:     TCGATGCACAGCN                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: TCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|14991512|gb|BI317185.1|BI317185
EST:     CTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: CTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|5175344|gb|AI759677.1|AI759677
EST:     CCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: CCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|208161219|gb|GD961741.1|GD961741
EST:     ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
EST: gi|19944926|gb|AB082946.1|AB082946
EST:     ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCT                         CTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC
genomic: ATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatat ... tgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttcccattgaaaattatattaagctatattgtttgttccttgtgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACCCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA
                                      ttccttgt  CT-rich tract
        attgaaaattatatta  TA-rich tract