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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG

Basic information

species Oryza sativa
transcript LOC_Os07g03250.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G008234_T01 (Zea mays), 3'ss of exon 1
----gta-agtgttattacattcctcatgtggtaactttacatggtaaaaatgttc--tcgtggtaaaaagtaaaaataaataaa-------aaaagttcttttactttg------------------gttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
    | | ||   |   ||||||     |  | | || |||  |        |  |   || |||| |||||||||| ||| | |       |||  ||   || | |||                  |  | ||||| ||||| ||||| ||| |||||||||| ||||||||||| || |||||||||||||||||||| |||||||||||||| |||||||||||||||
gtaagcagagcactcacacattcacgcagatgcagctctactagagggggccggccggccggggtagaaagtaaaaaaaaaaacatggtggtaaagatttccttgcattgtgtgtgtatgtggccgtggccgtgggtgtttagGCGGGTACGACGTGGAGGAGAAGGCGGCGAGAGCCTACGACCTGGCGGCGCTCAAGTACTGGGGCCCTTCCACGCACATCAACTTCCCG

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA0041S00200.1 (Glycine max), 3'ss of exon 6
gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
     |  || | | || |  | |||    | ||     ||    ||  | |  |    ||| |  ||  | | ||       || ||||  ||||    |   |||  |||||| ||||| ||||| |||||||| || || || ||||| || ||||| |||||||||||||| ||||| |||||||| |||||||||
-----tactagttcttttccaaagtgtccgcgtt-ttcagtgctcatactttttttactaaatgctaatttgattagtggtgattttttttgtttgt---gaactga--agGTGGTTATGATATGGAAGAGAAAGCTGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACACACATAAACTTCCCG

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA05G22970.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------gtaagtgtta----ttacattcctcatgtggt--------aactttacatggtaaaaatgttctcg-tggtaaaaagtaaaaataaataaaaaaagttctt-ttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
                                                   | || | | |    ||| |||   ||    ||         |  | |  |  || ||||| |   | || ||| ||   |  | || | |      |||   | | || |       |   ||||| || ||||| ||||| || ||||| |||||||| ||||| || ||||| |||||||||||||| || ||||| ||||| ||||| || 
gtaaggtttcttaagaccttaatatctttttattttcttttaattcaggttgaaattctcagagcttagattaaccagacagttaaagatagatatcaattaatataaatgcttatgatgttaacaaaagaggaaaattgatgtttattcaagtcatttcgaacttttgattttagGGGGTTATGATATGGAAGAAAAAGCTGCGAGAGCTTATGATCTAGCGGCACTCAAGTATTGGGGACCCTCCACTCACATAAACTTTCCT

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 4
gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
        ||||    |    ||      ||  |   || |   ||| |   |    |    | |    |||| |   |   | ||    | |||| ||  |    |  ||| || ||||| |||||||||||||| || ||||| ||||| || ||||| || ||||| ||||| ||||| || || || |||||  ||
-------gtatttgggtaagtattctcccacactttttgtttgcaatttcaacactcttgctactgtttataattgttacgtggtca---attttgtttttgaactaa-agGGGGTTATGATATGGAGGAGAAAGCTGCAAGAGCCTATGATCTCGCGGCCCTTAAGTACTGGGGACCTTCAACGCATATAAACTTTTCG

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA17G17010.1 (Glycine max), 3'ss of exon 4
gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaa--agttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
             ||  |       | ||  | |   |    |||||| |   |  || || |    |   ||||  |     | |    | | |          |   ||||| || ||||| ||||| || ||||| || ||||| ||||| || || || |||||||||||||| || ||||| ||||| ||||| || 
-------------cagacagttaaagatagatatcattaaataaaatgcttatgacgtcaacaaaggaggaaaattgatgtttattcaagtcattccaaacttttgattttagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATCTAGCTGCACTCAAGTATTGGGGACCCTCCACTCACATAAACTTTCCT

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 6
gtaagtgttattacat-tcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
           ||||  ||||  |        | | |||  | ||    |  |  |  || | | ||  |||    |  |   ||   |||  |||| ||| |       |||||| ||||||||||| |||||||| || || || ||||| || ||||| |||||||||||||| ||||| || ||||| |||||| ||
---------gctacaagtccttttccaaagggtctgcattttcaatgc-tcatacttttacagaatactaatttg-atgaggggtgaattttttttgtttgtgaactga-agGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
          | |    |||  | |  |   |  | |||   |||   |    |  ||| |   |     |   || |     ||   ||  ||        |    | ||| |||||||| ||||| |||||||| || ||||| || || |||||||| ||||| || ||||| ||||| || || ||||||||||||
---------gtaagcccccttttctttttggtcgaaatgaagaaaccatgtatg-agtatattctgttcgtgtttata-----tttaattgattctacccatgtctttcagGGGGGTATGATATGGAAGAGAAAGCTGCAAGAGCTTACGATCTGGCGGCCCTCAAATACTGGGGACCTTCTACTCATATCAACTTCCCG

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 3
gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
          ||   ||  || ||      |||   || |  |   |   |   |  | | |      | | |||     |   |||  |    ||     |  |  ||||| || ||||||||||| || ||||| || ||||| ||||| ||||| || || ||||||||||| ||||| || || ||||| ||||||
---------tttcagtttatcttggtaagccttcttatagagaggttcaacatttaatcatacaccccattcaatttttcatcatctcatgtcctgaaactgatt--ttagGGGGTTATGACATGGAAGAAAAAGCTGCAAGAGCTTATGATCTGGCAGCACTTAAGTATTGGGGACCTTCTACCCATATCAATTTCCCG

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ26861 (Selaginella moellendorffii), 3'ss of exon 3
gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcg-tggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
         | | |     | |  |||     |  ||   |     |||||  | | | |     |     |   | |   ||  | | || |   |  ||   | |   ||| || |||||||  || |||||||| ||| |||||||||| ||||||||||||||||||||||| ||| | ||   ||||||||| || 
---------aatgcgcagtttacctgggtgagtgtcactctttgt-tgttcgtgcttgaagttttttttcgttcctcatttaatgtttcttgccgggaatgaatgcg--cagGGGGTTATGACAAAGAAGAGAAAGCAGCGCGAGCGTATGATCTGGCGGCGCTCAAGTATTGGGGACCTACGACCACCATCAACTTTCCT

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ21317 (Selaginella moellendorffii), 3'ss of exon 3
gtaagtgttattacattcctcatgtggtaactttacatggtaaaaatgttctcg-tggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
         | | |     | |  |||     |  ||   |     |||||  | | | |     |     |   | |   ||  | | || |   |  ||   | |   ||| || ||||||| ||| |||||||| ||| |||||||||| ||||||||||||||||||||||| ||| | ||   ||||||||| || 
---------aatgcgcagtttacctgggtgagtgtcactctttgt-tgttcgtgcttgaagtgttttttcgttcctcatttaatgtttcttgccgggaatgaatgcg--cagGGGGTTATGACAAGGAAGAGAAAGCAGCGCGAGCGTATGATCTGGCGGCGCTCAAGTATTGGGGACCTACGACCACCATCAACTTTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
     aagtaaaaataaataa  TA-rich tract