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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaatattatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA

Basic information

species Glycine max
transcript GLYMA05G36600.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g02410.1 (Oryza sativa), 3'ss of exon 5
gtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaatattatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA
                |   || | | || || |    ||   ||||     ||  | |  ||| |    |     |  || ||  | || || ||  | ||  | |  | |  |||||||||||||| |||||||||| ||||| ||||| || || || ||||| ||||| || ||||| |||||||| ||||| ||||| || ||||| |||||
---------------gttcgacct-tgatcacatacatag---tcctttgggttggtaa--caactgcgatcatctgtcttgcatatacttatcgtgctttgattttg-gtacgcagATATCCTTCTCCTGGATGTGGCACCCCTTACCCTCGGTATCGAGACTGTCGGTGGAGTCATGACCAAGTTGATCCCCAGGAACACCGTCATCCCCACCAA

upper sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G415007_T01 (Zea mays), 3'ss of exon 5
gtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaatattatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA
                |           | ||| || |   |   ||   | || ||| | |  |||  | | ||  |         |  |||   ||||    |  || ||| |||||||||| ||| | ||||||||||| |||||||| || ||||| || || ||||| || ||||| |||||||| || || |||||||| ||||| |||||
---------------gttcggtgctctttcactagtgctatag--ctgggtgtttttttttcttgtaagtggtcatcc------tgcttacataagtgtgattttgccttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCGGTGGAGTCATGACCAAGTTGATCCCGAGGAACACTGTCATCCCGACCAA

upper sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G114793_T01 (Zea mays), 3'ss of exon 5
gtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaatattatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA
           |       |  || |   | ||  |     | |  ||  | || ||| ||  |   |||      || |||||     | | |||  | |   |  || ||| |||||||||| ||| | |||||||||||||||||||| || || || || || ||||| || ||||| |||||||| || || |||||||| ||||| |||||
----------gttcggctcatgttttttgtgctcttttgccactggtaggtgttttttttggtaagtgatcattctgc-ttaca-----taagtgtgattt--ttgccttgatgcagATATCCTCCTCCTTGATGTGGCTCCCCTCACCCTGGGTATCGAGACCGTCGGTGGAGTCATGACCAAGTTGATCCCGAGGAACACTGTCATCCCGACCAA

upper sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 5
gtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaatattatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA
           | | || |   | ||||  |  |   |||||  | | |||   ||   || ||||   |||| |        ||| |     |||| ||| | |   || ||| ||||||||||||||||||||||||||| ||||| ||||| |||||||| ||||| ||||||||||| || ||||||||||||||||| |||||||| |||||
----------gtattatttccatcctcaccatcttcgcagaa-ccttcaatggcatggttgaaagt---ttgcta--------actct-----tgttctgttgtttcatgtatc-agATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA

upper sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 3'ss of exon 5
gtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaata-ttatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA
                | | | ||| ||||   | || |  |    || ||  || |  || | |||   |||        || || ||     || | ||    |   |  || ||||||| |||||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||| ||||||||||| || |||||||||||||| |||||
---------------gtatcatttc-cattctctatcaatgaccgatagatggttgtgcat-cgagtg--ttgatgaatggtagacatt-----tgatatgatatttgttccatgcagATATTCTTCTCTTGGATGTGGCTCCGCTCACTCTTGGAATTGAAACCGTTGGTGGGGTGATGACCAAGTTGATTCCTAGGAACACTGTTATCCCGACCAA

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|6482309|gb|AW201578.1|AW201578
EST:     GCAGTGGCAAGGAACCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAG                         ATATCCTTCTCTTG-ATGTGGCTCCCCTCACCCTTGGAATTGAAACTG
genomic: GCAGTG-CAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAGgtactacagt ... ctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTG
EST: gi|192328339|gb|FK020050.1|FK020050
EST:     TGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCGAAG                         ATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTG
genomic: TGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAGgtactacagt ... ctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTG
EST: gi|254344089|gb|GR850999.1|GR850999
EST:     GTGAAGAAACCAAAG                         ATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTG
genomic: GTGAAGAAACCAAAGgtactacagt ... ctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTG
EST: gi|48575122|gb|CO036245.1|CO036245
EST:     TGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAG                         ATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTG
genomic: TGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAGgtactacagt ... ctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA
                                         ctctct  CT-rich tract