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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcacctccgtcactttagaggagctatatttgtgatccttaatacaccaaatcaattttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT

Basic information

species Glycine max
transcript GLYMA14G06340.2
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 23
----ctgcacctccgtcactttagaggagctatatttgtgatcctt--aatacaccaaatcaattttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
        |      | | | |  |     | || || |  | |||   |  |   ||||| || |   || ||    |    | |     || |||   || ||| ||||| ||||| ||||||||||||||| |||||| |||||||||  | ||||| |||||||||||||||||||| ||||| || || || ||||| |||
gtatgcaaattgtttttattcttcataccttttaattttatttcttctgaatctttaaatccatcta--ttgattgcttacatagaaatcgat-ttgaattgccagGTATGTGGTTGAAAGAATGGATGGTGATCTGTGGGATAAAGTTCTACAGCCTGAAAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCTACGGCT

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 23
ctgcacctccgtcactttagaggagctatatttgtgatccttaatacaccaaatcaatt--ttctttaatacaatgttcacatg---cttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
  | |      |   |||  |      ||| || | ||  |   |   |  ||||  |   | | |  ||  | || | ||||     |    |||   || ||| ||||| ||||| ||||||||||||||| |||||| |||||||||  | ||||| |||||||||||||||||||| ||||| || || || ||||| |||
--gtatgcaaattgttttt-attcttcatacttttaattttatttcttctgaatctttaaatccatcgattgattgcttacatagaaatcgatttgaattgccagGTATGTGGTTGAAAGAATGGATGGTGATCTGTGGGATAAAGTTCTACAGCCTGAAAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCTACGGCT

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
------------ctgcacctccgtcactttagaggagctatatttgt---gatccttaatacaccaaatcaattttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
             |      | || |||   || |   | | |||||     ||||  ||| |   |   |    ||  |    || ||| |||||   |   ||   ||  ||||||||| ||||||||||||||||||||| |||||| |||||||||| | ||||| |||||||||||||||||||| ||||| || || || || || || 
gtatataattatttttgttcctgttact---gatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtca-tgt-cacataaat---ttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: GRMZM2G325285_T01 (Zea mays), 3'ss of exon 12
ctgcacctccgtcactttagaggagctatatttgtgatccttaataca------ccaaatcaattttct--ttaatacaatgttcacat-gcttatatt-gtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
       |     | |||  |        | ||||||  | |  | ||      ||| ||||||| |||    | |   ||||||| || || | ||||    ||||||| ||||| ||||||||||||||||||||| |||||| |||||||||| | || || |||||||||||||||||||| ||||| || || || || ||||| 
----gtatgtaataatttttattgttgtgacttgtgacacctgtttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacagGTATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCCGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACTGCA

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 3
ctgcacctccgtcactttagaggagctatatttgtgatccttaataca------ccaaatcaattttct--ttaatacaatgttcacat-gcttatatt-gtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
       |     | |||  |        | ||||||  | |  | ||      ||| ||||||| |||    | |   ||||||| || || | ||||    ||||||| ||||| ||||||||||||||||||||| | |||| |||||||||| | || || |||||||||||||||||||| ||||| || || || || ||||| 
----gtatgtaataatttttattgttgtgacttgtgacacctgtttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacagGTATGTGGTTGAGAGAATGGATGGTGATCTATGGGATAAAGTTCTTCAGCCCGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACTGCA

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 23
ctgcacctccgtcactttagaggagctatatttgtgatccttaatacaccaaatcaattttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
       |   | | | | |   | ||| | || | |      |||  ||| |  | ||   ||  | || |  | |||| |   || ||   |   ||| || || || ||||| |||||||||||  | ||||  || ||||||      || ||||||||||| ||||||||||| || || ||||| |||||||||
------gtatttgattattgctta-ctagacttcttactt---atattccacactagttactttgtagactacttacacacg---attttccaactgcagGTACGTAGTGGAGAGGATGGATGGTGACCTCTGGGAGAAGGTTCTTACGGAAGAAAATGAATATAGGAGGCAACTTATAGACCAAGTTGTGTCTACTGCT

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 23
ctgcacctccgtcactttagaggagctatatttgtgatccttaatacaccaaatcaattttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
 |       | | ||||  ||  |    |  |||| |  ||     ||| |     | |||      ||   |||| | |  |   | ||   ||   || ||||| || ||||| |||||||||||| |||||| ||| ||||| |||    | ||||| |||||||| || |||||||| || ||||| |||||||||
gtattttatcattacttacgaaaa----ttcttgttactct-----cacaatggtgacttt-----gtagtttgttaatacacaagtttt-caattgtagGTATGTAGTGGAGAGGATGGATGGTGATCTGTGGGATAAGGTTCTCGATGAAAACAATGATTATAGAAGACAGCTTATTGACCAAGTTGTGTCTACTGCT

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 23
ctgcacctccgtcactttagaggagctatatttgtgatccttaatacaccaaatcaatt--ttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
       |  || ||||        |   || | | ||| |  || ||   | ||| ||  | | |  |  | |  | ||||| |||  |||       ||||||||| ||||| || ||||||  |||| | ||||  ||||||||||| ||||||||||| |||||||| || || |||||||| || ||||||||||||
------gtttgtgacttgtttacttcccgatatattatcat--atgcatggattcatttggtacatggacgctacttacacatacttccattt------cagATATGTAGTTGAAAGGATGGATTCTGATCTCTGGGAGAAAGTTCTTGACCCTGATAATGATTATAGAAGACAGCTCATTGATCAAGTAGTATCTACTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaccaaatcaattttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT
                ctttaat  putative branch site (score: 4)
     aaatcaattttcttta  TA-rich tract