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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttactacaatttgtagcaactgaattaccaaagtgacactaagaatcggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTTATGGCCAATGACCAGATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTAC

Basic information

species Glycine max
transcript GLYMA02G36550.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g17370.1 (Oryza sativa), 3'ss of exon 5
---------------------------------------------------------gttagttacta--caatttgtagcaactgaattaccaaagtgacactaagaatcggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGC----TGGGATACCTATCTTCTTATGGCCAATGACCAGATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTAC
                                                         | |||  | |   || | || |  |  || | | | ||  |     ||  |        |   | |||| |  | | | |  ||| |||  |||||| | |||||||||| ||||    |||||||||||||| || ||| |  ||||||| || ||||||||||| ||||| |||||  | ||||||    
gtgagatatatgtgcacttttttccgatcgttctgctctaatgaaatgatcgcagtagctagaaattgttcagtgtgcactagatggagtgctaatattttgttaccatctatgcgtcctt-ttgactattctgtcaatttgcagGAGAGTGATATCAAGTGGGCATCTCGCTGGCTGGGATACCTATCTACTGATGACGGATGACCAAATCCACTGGTTTTCCATTGTGAATTCCCTCATGATT----

upper sequence: GLYMA02G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G409104_T01 (Zea mays), 3'ss of exon 6
----------------------------------------------------------------gttagttactacaatttgta-gcaactgaattac-caaagtgacactaagaa--tcggatttagatgttgatttct-tttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTTATGGCCAATGACCAGATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTAC
                                                                   |||  | ||  |       ||  |  ||         |  |  | ||||  || |||  |  | ||  ||  | | | | || || ||| ||||  | | ||||||||||  |||||||| ||||| ||||| |||||  | ||||| || || |||||||| |||||||||||  ||||||| || |
gttagtttcaactatttttcatcttgaacttttttgtctatgaccaaccttaatgcactataacagaagtctccactgtaaacctacagatagatggtatgttttttccttgagaagttcagatgcattttttagttcatatgtgtgccgtgcagGAAAGTCCTATCAAGTGGGCATCACGCTGGGACACCTACCTTCTGATGGCAGACGACCAAATCCATTGGTTTTCTATTGTCAATTCACTGATGATAGTCC

upper sequence: GLYMA02G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 6
-----gttagttact--acaatttgtagcaactgaattaccaaa------gtgacactaagaatcggatttagatgttgatttctttt--ttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTTATGGCCAATGACCAGATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTAC
        |  ||||  | |||   ||   | |     |  ||       ||   ||    |||   |||    | ||| | || | |  ||    || |||  ||||||||||| ||||| | ||| ||||||||||| ||||| |||||| |||| || |||||||||||||||||||||||||||||||||||||| |
gtaagaccacatactttataataaataatgattttgccattaacctgtgtgtactacaggcaatgatattcctgtattgctgtcatgtgcttggtatgcagGAGAGTGATGTGAAATGGGCCTCTCGATGGGATACCTACCTTCTGATGGCCGATGATCAAATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTTC

upper sequence: GLYMA02G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S24_182V6.1 (Physcomitrella patens), 3'ss of exon 6
------------------gttagttactacaatttgtagcaactgaattaccaaagtgacactaagaatcggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTTATGGCCAATGACCAGATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTAC
                  | |  ||  |   || | |  | |   |   | | |  |  ||||     || |    || |  || |  | |||| |  | | ||   ||||| |||||||||||||  || ||||| || ||||| || | |    |||||||||| || |||||||||||  ||||||| ||||||||||| |
tatgcgtaatgtagtagtgatctttgattttatcttttcccatgaagggatcgagct--cacttgatgtcag-cgaaggtaatgttcacgttttcatgt-gcagCTCAGTGAGGTGAAGTGGGCATCCCGGTGGGACACATATCTACTGACGCAAGATGACCAGATCCATTGGTTTTCAATCATCAATTCCTTGATGATTGTTC

upper sequence: GLYMA02G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S83_105V6.1 (Physcomitrella patens), 3'ss of exon 6
---gttagttactaca---atttgtagcaactgaattaccaaagtgacactaagaatcggatttag----atgttgatttcttttttacctt-----gtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTTATGGCCAATGACCAGATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTAC
   ||  |||   | |   |||| ||     | |||  |      |  | |   |||| | ||||     |  ||| |  | |   |   ||     | || | ||||||||||||||||||| ||| ||||| || ||| | ||   |    |||||||||| || |||||||| ||| ||||||| ||||||||||| |
agcgtatgttgtgatactgatttttattgtatcaatcgctcggaagg-atttcaaatccgctttacggctactttggtaacgtcaatgggttcgtgtgcagCCTAGTGATGTGAAGTGGGCATCTCGGTGGGACACGTATTTACTGTCGCAAGATGACCAGATCCATTGGTTTTCGATTATCAATTCCTTGATGATTGTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accaaagtgacactaagaatcggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTTATGGCCAATGACCAGATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTAC
                              tgttgat  putative branch site (score: 4)
                                    tttcttttttaccttg  CT-rich tract
                                ttgatttctttttta  TA-rich tract