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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactaaatcatctattcatgatttcaatgtttaaaactttaagttgttgctaagttctgatgcagtgatgtctatatctgaaattgcatttatttgtgaagGGATATCAAAGGAGCAAATATACTGGTAGATCCAACTGGTCGGGTCAAGTTGGCAGACTTTGGCATGGCAAAACAT

Basic information

species Glycine max
transcript GLYMA20G30100.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G30100.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 6
gtaaactaaatcatctattcatgatttcaatgtttaaaactttaagttgttgctaagttctgatgcagtgatgtctatatctgaaattgcatttat-----ttgtgaagGGATATCAAAGGAGCAAATATACTGGTAGATCCAACTGGTCGGGTCAAGTTGGCAGACTTTGGCATGGCAAAACAT
               ||   ||   ||   | ||      |||   | |||  |  ||   | || | | |||     ||   || |    || ||     || || |||||||| ||||| ||||||||||| |||||||| | |||||| || ||| | ||||| ||||| ||||||||||||
--------------gtagcaatttctttggttttctctcttttctttggtttgtttgtatcggtggaattatggtgtaattataagtcctgttcatcacaattttgcagGGATATTAAAGGTGCAAATATACTAGTAGATCCTAGTGGTCGTGTTAAGCTTGCAGATTTTGGAATGGCAAAACAT

upper sequence: GLYMA20G30100.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 3'ss of exon 6
---gtaaactaaatcatctattcatgatttcaatgtttaaaactttaagttgttgctaagttctgatgcag-tgatgtctatatctgaaattgcatttatttgtgaagGGATATCAAAGGAGCAAATATACTGGTAGATCCAACTGGTCGGGTCAAGTTGGCAGACTTTGGCATGGCAAAACAT
     |  | |  || | |  || | | ||||    || |     | || |||     |     | || || | || |   ||| ||  ||      || || || ||||| || ||||| ||||| |||||||||||||| | |||||| || ||| | || ||||| || ||||||||||||
gtaacattccatttccttttgtcgttagttcagcacttcagttccttagatgtaagcta-ccaagttgtagattattttattatttgtcatgttccataatt-tgcagGGACATTAAAGGTGCAAACATACTGGTAGATCCTAATGGTCGTGTAAAGCTTGCTGACTTCGGAATGGCAAAACAT

upper sequence: GLYMA20G30100.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G175504_T01 (Zea mays), 3'ss of exon 5
gtaaactaaatcatctattcatgatttcaatgtttaaaactttaagtt--gttgctaagttctgatgcag-tgatgtctatatctgaaattgcatttatttgtgaagGGATATCAAAGGAGCAAATATACTGGTAGATCCAACTGGTCGGGTCAAGTTGGCAGACTTTGGCATGGCAAAACAT
||| | |   |||| | ||  ||  |||||| |||     |  |  ||  |    | |  |||  |   | |  ||  | | | ||   |  || | ||||||  ||||| |||||||| || || ||||| ||| |||||| ||| || || ||| | ||||||||||| ||||||||||||
gtagaatt--tcattttttt-tgggttcaatcttttgggttgcacattcagcaaatgacatctatttttgcttttgcttttgtgtgtgctatcaataatttgt--agGGACATCAAAGGTGCCAACATACTAGTAAATCCAAGTGGCCGTGTTAAGCTTGCAGACTTTGGAATGGCAAAACAT

upper sequence: GLYMA20G30100.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 5
-------------------gtaaactaaatcatct-attcatgatttcaatgtttaaaactttaagttgttg--ctaagttctgatgcagt--gatgtctatatctgaaattgcatttatttgtgaagGGATATCAAAGGAGCAAATATACTGGTAGATCCAACTGGTCGGGTCAAGTTGGCAGACTTTGGCATGGCAAAACAT
                   ||  |   ||  |||| |    |   | |  | | |  |  |||   || ||    | | |||  |    ||      | | | ||  |||    ||||   |||  |||||||| ||||| ||||||||||| ||||| |||| |||||| |||||||| ||||| ||||| |||||||| |||
gtgaatcaagttaccaattgttgatccaacaatctgaagtgtagctgctttttattgatttttctattatttgctttatttcaaactttgttcaccttttttctcacaaaccatattt-cctgtacagGGATATTAAAGGGGCAAATATACTTGTAGACCCAAGTGGTCGAGTCAAGTTAGCAGATTTTGGAATGGCAAAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctaagttctgatgcagtgatgtctatatctgaaattgcatttatttgtgaagGGATATCAAAGGAGCAAATATACTGGTAGATCCAACTGGTCGGGTCAAGTTGGCAGACTTTGGCATGGCAAAACAT
        ttctgat  putative branch site (score: 3)
                                          tttattt  putative PPT
                                  aaattgcatttattt  TA-rich tract