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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgatcagcagctgaacccgctgacagttgatagaaaagctcaatagattaccatgttcactgttttttttcttctgatgcag

Basic information

species Glycine max
transcript GLYMA11G09890.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g42350.1 (Oryza sativa), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttg---atcagcagctgaacccgctgacagttgatagaaaagctcaat--------agattaccatgt-tcactgt-tttttttcttctgatgcag------------------------
|||||| || || || |||||||| |||||||||||||| || ||||||||||| ||||| ||  ||||  | ||||||||||| ||||| || || ||||| |       ||    |       ||  |      || | |    |||  ||        || ||    |   ||| ||  |||| ||||| | ||                            
TGAGTCGGTAGTGGTGAGGATAACAGGCTGCCCTAATGGATGCGCTAGACCATATATGGCAGAGGTTGGCTTTGTTGGTGATGGCCCAAACAGTTACCAGgtataggagatattgaaaatattttcctttaggctatgtttgtttggcttcattttcttttagtttgtttttcgtcattgcgttttcttctttttatcttcactaaacatttcttttgtggccag

upper sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G090338_T01 (Zea mays), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgatcagcagctgaacccgctgacagttgatagaaaagctcaatagattaccatgttcactgttttttttcttctgatgcag---------------------------------
 |||||||||||||| ||||||||||| ||||||||||| || ||||||||||| ||||| || |||||  | ||||||||||| ||||| || || |||||     ||  ||  ||  |    |        |  |    |   ||| | |   | | |    | |   |||||| |  | ||   |                                 
GGAGTCTGTGGTTGTGAGGATAACTGGATGCCCTAATGGATGCGCTAGACCATATATGGCAGAGCTTGGTTTTGTTGGTGATGGCCCAAAAAGTTACCAGgtaacaagaatagtggcatattttgacacatcattttgattacattcacttggcaatcttacctatttagttttttttgtttattttgtatttattgcactctactctactgtggccatag

upper sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G04590.1 (Arabidopsis thaliana), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgtt--gatcagcagctgaacccgctgacagtt-gatagaaaagc--tcaatagattaccatgttcactgttttttttcttctgatgcag
 |||||||| ||  ||||  |||| || || || || || ||||| ||||| ||||||||||| || || ||||| || |||||||| || |||||||||||  | |  || ||  ||||       ||     |  || || | ||   | |  |      |   |   |||  || ||     |  |||||
CGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCAAACGGCTGTGCAAGACCGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttggagcacaagctcttgttactagtgatgagacagtatagtagtaagcaagcaggctaatattctgagttgttgtcggttgtgcag

upper sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv06s0004g02330.t01 (Vitis vinifera), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgatcagcagctgaacccg--ctgacagttgata-gaaaagctcaatagattaccatgttcactgttttttttcttctgatgcag--------------------------
||| ||||||||| |  || ||||||||||||||||||||||||| ||||| |||||||| ||||||||||| || ||||||||||| || |||||||||||   |  | ||    ||| |       | | |     || ||| || |  ||   |  || | |  ||  | |    | |  | |  |                            
TGAATCTGTGGTTATTCGGGTAACTGGCTGCCCTAATGGTTGTGCGAGACCTTACATGGCCGAACTTGGACTTGTCGGTGATGGTCCCAACAGCTATCAGgtaattaaaccactgactgcattgaatttaaaaagaactatgaagaggttgattactgcccttttagacaatatgggatatatttacactaaaatatttgttatggttttcaaacag

upper sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S47_171V6.2 (Physcomitrella patens), 5'ss of exon 4
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgatcagc---agctgaacccgctgacag-ttgatagaaaagctcaatagat--taccatgttcactgtt---------ttttttcttctgatgcag-------------------
 |||||  |||| ||  | || ||||||||||||||||||||||| || || |||||||| || |||||| ||||||| ||||| || || ||||| ||||| |  |   || |     |  ||     ||     || | ||  |   |     |||  | | |||  |||| ||         ||   |  | || ||||                    
AGAGTCCCTGGTGGTTCGCATTACTGGCTGCCCTAATGGTTGTGCAAGGCCGTACATGGCAGAGCTTGGATTAGTTGGCGATGGACCCAACAGCTACCAGgtataatttccaactttgacaaaaattattgttgccttaacagctatatttgcatgataatgctatggccacttttgagtacgacttgaatggtttggtgcatttctgttttctctctgtag

upper sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S160_137V6.1 (Physcomitrella patens), 5'ss of exon 5
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttg-ttgatcagcagctgaacccgctgacagttgatagaaaagctcaatagattaccatgttcactgttttttttcttctgatgcag---------------------------
 || ||  |||| || || || || ||||||||||| || |||||||| ||||||||||| || || |||||||||||||| || ||||| ||||| ||||| |  || |    |   |     |||   || |  |    | ||  ||| |         ||| | | ||||  ||  |   |   ||                           
GGAATCGCTGGTGGTGAGAATTACCGGCTGCCCTAACGGGTGTGCTAGGCCATACATGGCAGAGCTCGGACTAGTTGGTGACGGCCCAAACAGCTACCAGgtataatttaatgtcttgtcgcttcgcaagcactctagttcacagaccaacatcagttttagttaatttttttcctttgtgaaacttagggtttcaatctgttgattgtggtgcag

upper sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ27223 (Selaginella moellendorffii), 5'ss of exon 5
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgatcagcagctgaacccgctgaca-gttgatagaaaagctcaatagattaccatgttcactgttttttttcttctgatgcag
 || ||  |||| ||  |  | || || || |||||||||||||| || ||||||||||| ||||||||||| || || |||||  ||||||| ||||||||   ||  |  |  |||    |   | ||| ||| ||   || | |                                          
GGATTCGATGGTGGTGCGAGTCACCGGGTGTCCTAATGGTTGTGCGAGGCCATACATGGCAGAACTTGGACTGGTCGGAGATGGAGCAAATAGTTATCAGgtaattttctgtggtgctttttcaatttacacgtttatgtcaatggtag----------------------------------------

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|46492779|gb|CN472335.1|CN472335
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCA
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCA
EST: gi|193467858|gb|FK430829.1|FK430829
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAG
EST: gi|9903367|gb|BE612335.1|BE612335
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|27809358|gb|CB063780.1|CB063780
EST:     CATACATGGCTGAACTTGGACTAATTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|9903129|gb|BE612097.1|BE612097
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|18038844|gb|BM307138.1|BM307138
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|15000299|gb|BI321113.1|BI321113
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|42722808|gb|CK768707.1|CK768707
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|6747403|gb|AW317859.1|AW317859
EST:     CATACATGGCTGAACTTGGACTAATTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|31459746|gb|CD401774.1|CD401774
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
EST: gi|22928746|gb|BU545885.1|BU545885
EST:     CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAG                         ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG
genomic: CATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgttgat ... tctgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTCGAAGTTTCATG