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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtagaatatctgtttcaaaaataatggttaggtgttgatgacatgaacctagtctagaaggttgtctaaccattaactatgaaaattatcaattgtggaatgtgtttggcttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGTCTTGGTTTCCTTTCATGGTACTTATCAGGGAAAGTTAGAGTGTTTGATCGCAGGGGGCATATTGGGAAACTATGCCTAGTCTTGCT

Basic information

species Glycine max
transcript GLYMA18G06580.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G06580.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g49820.2 (Oryza sativa), 3'ss of exon 5
-----------------------------gtaagtagtagaatatct-gtttcaa--aaataatggttaggtgttgatgacatgaacctagtctagaaggttg-tctaaccattaactatgaaaattatcaattgtggaatgtgttt---ggcttttttaatttggtaattaataaatg----------cagGGTCCTTTGCTGGTCTTGGTTTCCTTTCATGGTACTTATCAGGGAAAGTTAGAGTGTTTGATCGCAGGGGGCATATTGGGAAACTATGCCTAGTCTTGCT
                             ||| ||| |    || || ||| | |  ||||    ||    | |   | |     | | |    | | | ||| ||  ||  |  |||   | |  | | |  ||  |  ||   ||   |  |  | |   | | | |  |||  ||           ||||||| |||||||| ||||||||||| ||||||||  |  | || ||| | | ||| |||||  | || || ||| |||  ||||| ||| |  |  | ||
gtaagtgaattctgtcagttgataatttcgtatgtatttctctaccttgttactacgaaatctcagtggaatttcagttagcattatcaaacacataggattggtcatactctagactgcaagagcttttacgtgctgcctgctcttgtggagtactgtggatcgctgacgaatttatttttgtttcttcagGGTCTTTTGCTGGCCTTGGTTTCCTGTCATGGTATCTGGCTGGTAAAATAAAAGTTTTTGACAGAAGAGGCCATGTTGCAAAACTCTGCATTATTATTCT

upper sequence: GLYMA18G06580.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g13870.1 (Oryza sativa), 3'ss of exon 6
gtaagtagtagaatatctgtttcaaaaataatggttaggtgttgatgacatgaacctagtctagaaggttgtctaaccattaactatgaaaattatcaattgtggaatgtgtttggcttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGTCTTGGTTTCCTTTCATGGTACTTATCAGGGAAAGTTAGAGTGTTTGATCGCAGGGGGCATATTGGGAAACTATGCCTAGTCTTGCT
                             | ||  |   | |  |||  |     |    ||| ||   ||||  |   |   || ||   |      | | |  ||  | ||||  ||| || ||||        | || | ||||||| ||||||||||| || |||||| ||||||||||| | |||||  | | ||| |||||||| || || ||| |||  || |||||| |||| || ||
-----------------------------agtgtatgcatatgtatggtagtgttc----ctacaattatgtcatatggt--gctgtggcca-----gactatctaacatttttgtttttgtttatttac------acaactccagGGTCTTTTGCTGGTCTAGGCTTCCTTGCATGGTACTTAGCTGGGAAGATCACAGTTTTTGATCGTAGAGGTCATGTTGCAAAGCTATGCATAGTATTTCT

upper sequence: GLYMA18G06580.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G050658_T03 (Zea mays), 3'ss of exon 5
gtaagtagtagaatatctgtttcaaaaataatggttaggtgttgatgacatgaacct--agtctagaaggttgtctaaccattaactatgaaaattatcaattgtggaatgtgtttggcttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGTCTTGGTTTCCTTTCATGGTACTTATCAGGGAAAGTTAGAGTGTTTGATCGCAGGGGGCATATTGGGAAACTATGCCTAGTCTTGCT
                                          | ||||    ||| |  |     | |  |  | |     |  | | |||    | |  ||  |  || || | ||    || | |||   || |  |  | | ||||||| ||||||||||| || |||||| ||||||||||| | |||||| | | ||  ||||| ||||  |||||||||| ||| |||||| | || || ||
------------------------------------------taatgaagctaactttcaactcggtacctcatttttttttacattgtgatggctct--atcatctaaagtttgtg----ttgtcattgcctattacactacttcagGGTCTTTTGCTGGTCTAGGCTTCCTTGCATGGTACTTAGCTGGGAAACTCACAGCCTTTGACCGCAAAGGGCATATTGCGAAGCTATGCATTGTGTTCCT

upper sequence: GLYMA18G06580.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G024615_T05 (Zea mays), 3'ss of exon 6
gtaagtagtagaatatctgtttcaaaaataatggttaggtgttgatgacatgaacctagtctagaaggttgtctaaccattaactatgaaaattatcaattgtggaatgtgt-ttggcttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGTCTTGGTTTCCTTTCATGGTACTTATCAGGGAAAGTTAGAGTGTTTGATCGCAGGGGGCATATTGGGAAACTATGCCTAGTCTTGCT
                                         || |     | ||| | |      | | | | |       |  | |||      |    | |  | | ||| ||| | |||   ||||        |  |   ||||||| ||||||||||| || |||||| ||||||||||| | |||||| | |  |  ||||||||||  || |||||| |||| |||||| | || || ||
--------------------------------------aacttaa--gtttcaacttggcacctcatgatattttgtttacag-tgtgatggccgtatcatctaaactttgtgttgtcatttcctatttac------actacctcagGGTCTTTTGCTGGTCTAGGCTTCCTTGCATGGTACTTAGCTGGGAAACTCACGGCTTTTGATCGCAAAGGACATATTCGGAAGCTATGCATTGTGTTTCT

upper sequence: GLYMA18G06580.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g03170.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtagtagaatatctgtttcaaaaataatggttaggtgttgatgacatgaacctagtctagaaggttgtctaaccattaactatgaaaattatcaattgt-ggaatgtgtttggcttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGTCTTGGTTTCCTTTCATGGTACTTATCAGGGAAAGTTAGAGTGTTTGATCGCAGGGGGCATATTGGGAAACTATGCCTAGTCTTGCT
                                       |   | ||   | |||  ||      ||| ||| ||   |||  || |  |  |||   |||||  || | ||    ||||  ||    ||    |    | ||||||||| |||||| |||||  ||||||| || ||||| |||||||||||| ||||||  |||||||||| ||| ||||| |  |||||     | || |||||
---------------------------------------taaaggtgttttcaac--agctggagagggtgt-tatgtattggcttttga--ttagtcattgtcagagtatg---agcttacttggactgtggctatccatatgcagGGTGCTTTGCAGGTCTGAGTTTCCTCTCTTGGTATTTATCAGGGAAAATTAGAGCATTTGATCGCAAGGGCCATATAGCAAAACTCGCTATTGTATTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatcaattgtggaatgtgtttggcttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGTCTTGGTTTCCTTTCATGGTACTTATCAGGGAAAGTTAGAGTGTTTGATCGCAGGGGGCATATTGGGAAACTATGCCTAGTCTTGCT
                                        aattaat  putative branch site (score: 3)
                          ttttttaatttggtaa  TA-rich tract