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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgccccttcattcattcatttccttttctttctttaattatcaacctatttaatactacctttttttgacaatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGCAATCGGTCTTG

Basic information

species Glycine max
transcript GLYMA20G36790.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36790.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os12g40890.1 (Oryza sativa), 3'ss of exon 3
----------------------------------------------------------------gtcagtgccc---cttcattcattcatttccttttct-ttctttaattatcaacctatttaatactacctttttttgaca---atttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGCAATCGGTCTTG
                                                                 | |  |  |     | | ||  | || |   |   |  |||  |  | |   |  | ||   || |  || ||| || |   |  |  ||||||||| ||||||||||||||||| ||| | ||||||||||| || || || || || ||||
gtcagtaatctctacttaaattttctattatctaatatctaagtgtttaattttaataacctgaattaaggtactagtctgaatctctgatatgagtccatgctctgcatctgtgttctgaattctgaccattttgtttggaaatggaaatttcagGATGTTTGTTGAATCATGCAAGCGCCTTAGGATAATGAAAGGATCAGAAGCTATTGGCCTTG

upper sequence: GLYMA20G36790.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G138268_T01 (Zea mays), 3'ss of exon 3
---------gtcagtgccccttcattcattcatt-tccttttctttctttaattatcaacctatttaatactacctttttttgacaatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGCAATCGGTCTTG
         |   |    |  |  ||| | || | | ||  |  || | | |||  | |       |||| ||    |||        ||  |||||||||||| |||||||||||||| ||||| || |||||||| || || || || || || |
gtgagcactgcatgcatgcgcttcttcctgcactatactccttattatattattgcctaatcggaaaataataataatttccatttcattttcagGATGTTCGTCGAATCATGCAAGCGCCTTCGGATCATGAAAGGATCAGAAGCCATTGGCCTGG

upper sequence: GLYMA20G36790.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0081g00010.t01 (Vitis vinifera), 3'ss of exon 3
----------------gtcagtgccccttcattcat-tcatttccttttctttctttaatta-tcaacctatttaat--actacctttttttgacaatttca--cagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGCAATCGGTCTTG
                | || |        ||| |  |  ||||     ||| | | ||||| || |   |||| |   | ||    || ||   ||||| |  |||||||||||| ||||| ||||||||  | |||||||||||||| |||||||| ||||| ||||
gtaagttacaacatttgacaatattttccaatttaaattgtttcaaaggcttacatcaattaatccatagattttactaattaatccttctttggaatttgaatcagGATGTTCGTCGAATCTTGCAAGCGCTTGCGCATAATGAAAGGATCCGAGGCCATCGGACTTG

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|21594765|gb|BQ610259.1|BQ610259
EST:     TATGAAGACAAGGACTGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|254339868|gb|GR857993.1|GR857993
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|254339867|gb|GR857992.1|GR857992
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|21600987|gb|BQ611327.1|BQ611327
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGNGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|26057410|gb|CA800324.1|CA800324
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGNGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|151396677|gb|EV266550.1|EV266550
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|151398070|gb|EV267948.1|EV267948
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|192317984|gb|FK009464.1|FK009464
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|21602083|gb|BQ612414.1|BQ612414
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|51335090|gb|CO978956.1|CO978956
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|58024615|gb|CX711356.1|CX711356
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|192317983|gb|FK009463.1|FK009463
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|42722983|gb|CK768882.1|CK768882
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|192324558|gb|FK018714.1|FK018714
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|208178460|gb|GD977797.1|GD977797
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|192297650|gb|FG992758.1|FG992758
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTTTTCGCATAATGAAAGGTTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|214008573|gb|DB986750.1|DB986750
EST:     ATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGATTCAACGCATAATGAAAGGCTCCGAGGC
genomic: ATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|57576038|gb|CX549009.1|CX549009
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|26058652|gb|CA801566.1|CA801566
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGNGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|10236738|gb|BE805626.1|BE805626
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGC
EST: gi|151405757|gb|EV275571.1|EV275571
EST:     TATGAAGACAAGGACGGAGACTGGATGCTCGCCGGTGATGTGCCCTGGGA                         GATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATG
genomic: TATGAAGACAAGGACGGAGACTGGATGCTCGTCGGTGATGTGCCCTGGGAgtcagtgccc ... aatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttctttaattatcaacctatttaatactacctttttttgacaatttcacagGATGTTCGTTGAATCATGCAAGCGTCTTCGCATAATGAAAGGCTCCGAGGCAATCGGTCTTG
                                      ttttgac  putative branch site (score: 3)
       tttaattatcaaccta  TA-rich tract