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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgcttttgatatttcacccttattgttcttaatactgtgatattattggtatgactctttaaacaagtttcttcttagtagtccattatcattgcttgtttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG

Basic information

species Glycine max
transcript GLYMA20G38810.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g38950.2 (Oryza sativa), 3'ss of exon 4
----------------------gtatatgcttttgatatttcacccttattgttcttaatactgtgatattattggtatgactctttaaac--aagtttcttcttagtagtc-cat-tatcattgcttg--tttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG
                         | |  |||| ||||   |  ||  || |  |  |  ||  ||| ||  |  | |  |  ||| | |   |   |||    || || |  || |  |||| || |  |     |||||  ||||| |||| ||||| |||||||||||| | ||||||||||| ||||||||||||||||| || |||   || |||||| |||| || ||  |||
gtaggtcactgagtccaaatttccttttttttttaatataaaaagctagttttattggaggctaggatttttcttatttagcgtttttatctggaaaatctgacaagaagccgtatctgccatttctgggctccttacagGACTTGCCTAGAACTTTTCCAGGTCATCCTGCTTTAGACGAGGATGGAAGAAATGCTTTGAGACGTTTGCTTCTAGCTTATGCTAGACACAATCCAGCAG

upper sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g61860.2 (Oryza sativa), 3'ss of exon 3
---------gtatatgcttttgatatttcacccttattgttcttaatactgtgatattattggtatgactctttaaacaagtttcttcttag--tagtccattatcattgcttgtttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG
           || |  || | ||  ||     |||    |||  || || || |  | ||  ||  |   ||   |    |    |   ||  || ||  ||    | | || |||    ||||| ||||| |||| || || |||||||| || || || |||||||| ||||||||||| ||||| || || || || |||||  |||||||||| ||||
gtagatggataatttaattgttattattggaatttaactctctccatgctatggtgattttactaatatatttgggagtcctgcgctaagaggttaatctgttgctttgggttcttttt--agGATTTGCCTAGAACGTTCCCAGGTCATCCCGCACTAGATGAGGATGGCAGAAATGCTTTAAGACGCTTGCTCACAGCTTATGCGAGACATAACCCATCAG

upper sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G094951_T01 (Zea mays), 3'ss of exon 4
gtatatgcttttgatatttcacccttattgttcttaatactgtgatattattggtatgactctttaaacaagtttct-tcttagtagtccattatcattgcttgtttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG
                 |      |||| |   ||   || |   |||  |   | |      | ||| |   | || |  |   |||||| |||   |  |  |      ||||  ||||  |||| |||||||||||||||||| | || |||||||| ||||||||||||||||| || ||||  || |||||   ||| || || ||||
----------------gtagctgtttatggacattttcacgggattatcttgtattttttcgataaaatatactgctgtactgagagtccaatatgcatcttgatccttatagGACTTGCCCAGAACTTTTCCTGGTCATCCTGCTTTAGATGAGGATGGAAGAAATGCTTTGAGACGCTTGCTTATAGCTTATGCGAAACACAATCCATCAG

upper sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G051050_T01 (Zea mays), 3'ss of exon 4
gtatatgcttttg-atatttcacccttattgttcttaatactgtg-atattattggtatgactctttaaacaagtttcttcttagtagtccattatcattgcttgtttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG
|||  || || || | ||||   |      |  | |  || | |    || |    ||   || |      |||| |      | ||| |    ||   | | |     |  ||||| ||||  |||| |||||||||||||||||| | || |||||||| ||||||||||||||||| || ||||  || |||||   ||| ||||| ||||
gtagctgtttatgtacattttcacggggaagcaccttgtattttttggataaaatatactgctgtgctggaaagtct------aatagactccaatatgtaccttccctcatagGATTTGCCCAGAACTTTTCCTGGTCATCCTGCTTTAGATGAGGATGGAAGAAATGCTTTGAGACGCTTGCTTATAGCTTATGCGAAACACAACCCATCAG

upper sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatatgcttttgatat-ttcacccttattgttcttaatactgtgatattattggtatgactctttaaacaagtttcttcttagtagtccattatcattgcttgttt---gcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG
|||  | ||    || | |||| ||||     |||  ||   |||||       |  || || | |    |||||     | || | ||   |  | ||||||||||   |  |||||  | ||||| ||||||||||||||||||||||| || || ||||||||||||||| |  | || || |||||||| |||||| | ||||| || || |
gta-gtactcaaaatttattcagccttgaccctctctatgtagtgatgc----agcgtggct-tatgctgaagttga---tcaggattcttatgccgttgcttgtttaaagtacagGACTTACCTCGGACATTTCCTGGTCATCCTGCTCTAGATGATGATGGTAGAAATGCTCTACGGCGTTTGCTTACTGCTTATGCTAGGCATAATCCTTCTG

upper sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------------gtatatgcttttgatatttcacccttattgttcttaatactgtgatattattggtatgactctttaaaca-agtttcttcttagtagtccattatcattgcttgtttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG
                                       | | || |||| |  | |  || || ||      || | | | |  | |||| ||  | ||| ||||   ||  | | || |  |    |  |  ||| ||       ||||||| ||||||||||||| || |||||||||||||| || ||||||||||||||||||||||| || |||||||| |||||||||||||| |||||||| |
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaa---atgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactctttaaacaagtttcttcttagtagtccattatcattgcttgtttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG
                                          cttgttt  CT-rich tract
     tttaaacaa  TA-rich tract