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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaactccattatgcaaacaaaattgtttaattaatatatgctcattcaccattctttattctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG

Basic information

species Glycine max
transcript GLYMA08G13110.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g41860.1 (Oryza sativa), 3'ss of exon 3
-----------------gtaagtaactccattatgcaaacaaaattgtttaattaatatatgctcattcaccattctttattctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
                    | |  || | ||    |  |     | |||  |  ||  | | |   | |      ||||||    ||||||||| || |||||| |||||||| |||| | |||| | || || || || |||||||||||| | ||||| |||||| |||||||||||
gtatccacaaaacctggtctattttcttcttttgttaggccgtgcttttttgt--atgaaagattgctgagatgattttatttgcgcagTCTTCTCGCTATTGCTGAGGAGACCTTGGCAGAGTTCATGTCGAAGGCGACAGGAACTGCTGTCGAATGGGTGCAAATGGTTGGGATGAAG

upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g43930.2 (Oryza sativa), 3'ss of exon 3
------------------------------gtaagtaactccattatgcaaacaaaattgtttaattaatatatgctca--ttc---accattctttatt-ctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
                               |||| |||     |||||  ||       ||     |   | |||| |  ||     | | ||||| || ||  |||||| || || || ||| |||||||| |||| | |||||| || ||||| || || ||||||||| | ||||| |||||| |||||||||||
gtaattacagtgctagtgtccttaacttttctaag-aacatttgtatgcctacccttgcattgcgcgatcttttgcttaagtttgatgcaactctttgtttcttacagTCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAG

upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G178102_T01 (Zea mays), 3'ss of exon 3
gtaagtaactccattatgcaaacaaaattgtttaattaatatatgctcattcaccattctttattctg-ccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
    ||||  |    |  |     | |||    |  | ||   ||||      | | | ||  || || ||||||| || || |||||| |||||||  |||| | |||| | || || || ||||||||||||||||||||||| |||||| |||||||||||
----gtaagcctgaaac-ctggttacatttcaaaccttatccttgctgtaatgctaattttccttttgtccagTCTACTCGCTATTGCTGAGGAGACATTGGCAGAGTTCATGTCCAAGGCGACTGGAACTGCTGTCAACTGGGTGCAAATGGTTGGGATGAAG

upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G003509_T01 (Zea mays), 3'ss of exon 3
gtaagtaactccattatgcaaacaaaatt-gtttaattaatatatgctcattcaccattctttattctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
|||| ||| ||    |  |      | || ||||    | | |||||    ||   || ||  | | | ||||||| || || |||||| |||||||  |||||| |||| | || || || || |||||||||||||||||||| || ||| |||||||||||
gtaa-taagtctggaacacggttgcatttcgttttcaaactctatgcctgctc-taatgct--agtttcccagTCTACTCGCTATTGCTGAGGAGACATTGGCGGAGTTCATGTCCAAGGCGACCGGAACTGCTGTCAACTGGGTGCAGATGGTTGGGATGAAG

upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G34710.1 (Arabidopsis thaliana), 3'ss of exon 3
----------gtaagtaactccattatgca--aacaaaattgtttaattaatatatgctcattca--ccattctttattctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
           |      ||| || |  |   ||  || |   ||    | | | ||   |   |     |||||| || |   || || ||| | || ||  ||||| |||| || | ||||||||| || ||||| |||||||||||  ||||||| || |||||||||||||||
gtgagcttttcttgtctgctctataactctctaatgaattctgtttcccactctgtgacaacctaaatggttcttttttgt-ttagACTCCTTTCTATAGCAGAGGAGGCCCTAGCAGAGTTCCTTTCCAAGGCTACAGGAACTGCTGTTGACTGGGTTCAGATGATTGGGATGAAG

upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G30490.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtaa---ctccattatgcaaacaaa------attgtttaattaatatatgctcattcaccattctttattctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
||||| ||        || ||      ||      |||||   ||||  | | |    |  |       || || ||  ||||||||  | |||||  |||||||| |||||| ||||||||  || ||||| |||||||||||| |||||||||| |||||||||||||||
gtaaggaaggctctttttttgtttgtgaatttctcattgtgacattatgagaagagactaaatggagtgtttttttggtagTCTTCTCTCGATTGCGGAGGAGACCTTGGCGGAGTTCCTTTGCAAGGCTACAGGAACTGCTGTCGACTGGGTCCAGATGATTGGGATGAAG

upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 3'ss of exon 3
--------------gtaagtaactccattatgcaaacaa-----aattgtttaattaat--atatgctcattcaccattctttat-tctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
                 | | | ||   |||  | | ||     ||||   |  || ||  | ||||| |    || |  ||| | | |   ||||| || ||||| ||| ||||||||||||| | |||||| || || |||||||||||||||||| |||||||||| |||||||||||||||
gtaacttactttcaactatttaatctgatataaagaaaatacctaatttcctggttgatttacatgcttacgagccttcttttgtgtgtcatagTCTACTCGCAATAGCTGAGGAGACCCTGGCAGAGTTCCTGTCCAAGGCTACTGGAACTGCTGTCGACTGGGTCCAGATGATTGGGATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaaacaaaattgtttaattaatatatgctcattcaccattctttattctgccagTCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAG
                aattaat  putative branch site (score: 3)
                                    ccattctttattct  putative PPT
      aaaattgtttaattaa  TA-rich tract