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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttcaagaactatttccttctaaagcttccaataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT

Basic information

species Arabidopsis thaliana
transcript AT5G45190.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G308570_T02 (Zea mays), 3'ss of exon 13
gtacgttcaagaactatttccttctaaagcttccaataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
||| | |  | || || |       |  ||    | |||| | |    |    |   | | |  | ||||  | ||| | ||  ||||| || || || || || |||||||||||||| || || |||||||||||||| ||||| || || || || ||||| |||||||| ||| | |||||||||
gtatgct--aaaattactcttcatcactgcaaatagtaatcc-acaaac---atgcctacttact-ataccttaaaagg-ggtgtgcagGCTCCGCACTTCACTTTGCCTGCAATTTAAACCGCACCATATTGCGGCTGGCGCAATCTTCCTGGCTGCGAAGTTTCTTAAAGTCAAGCTTCCATCAGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: AC233979.1_FGT009 (Zea mays), 3'ss of exon 4
gtacgttcaagaactatttccttctaaagcttccaataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
||| | |  | || || |       |   |    | |||| |           ||||| |  |  | ||      |||| ||  | ||| || || || || || |||||||||||||| || || |||||||||||||||||||| || || || || ||||| || ||||| ||| | |||||||||
gtatgct--aaaattactcttcctcattacaaatagtaatccacaaacatccctatttactacgcctta------aaaggggtgtacagGCTCCGCACTTCACTTTGCCTGCAATTTAAACCGCACCATATTGCGGCTGGTGCAATCTTCCTCGCTGCGAAGTTTCTCAAAGTCAAGCTTCCATCAGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 5
gtacgttcaagaactatttccttctaaagcttccaataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
||| | |  ||  |||   | ||||     ||  ||| |   |       |||| | |    || ||   ||||    |     | ||| || || || || || |||||||| ||| |||||||||||||||| |||||||| || | | | || || || || || ||||||||  | ||||| |||
gtatgct--agtgctacc-ctttctgtcttttgaaattacagttcacag-ttgtgtatcta-ctacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G02860.1 (Glycine max), 3'ss of exon 5
gtacgttcaagaactatttccttctaaagcttcca-ataattctatgtgccttgtattttcgtcttcatac-aatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
||| | |   |    | ||  ||  ||     |    |   | ||| |      ||| || |    || ||     ||||||||||| ||| ||  ||||||| |||||||||||||||||||| |||||||||||||| ||||| || || ||||| ||||||||| | ||||||||| | |||||||||
gtatgatttggttgcaatttgtttgaatttaactgtgtcgatttatttttaaaatatatttgatcacacactggaaaaaagtggctttcagGCTGAGGACATCGCTCTGCCTGCAATTTAAGCCACATCATATTGCGGCAGGTGCCATTTTCCTTGCTGCCAAGTTCTTGAAAGTGAAGCTTCCATCAGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G02880.1 (Glycine max), 3'ss of exon 4
gtacgttcaagaactatttccttctaaagcttccaataattctatgtgccttgtattttcgtcttcatac-aatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
||| | |   |    | ||  || | ||  |  |  |   | ||| |      ||| || |    || ||     ||||||||||| ||| ||  ||||||| |||||||||||||||||||| |||||||||||||| ||||| || || ||||| ||||||||| | ||||||||| | |||||||||
gtatgatttggttgcaatttgtt-tgaatttaactgtcgatttatttttaaaatatatttgatcacacactggaaaaaagtggctttcagGCTGAGGACATCGCTCTGCCTGCAATTTAAGCCACATCATATTGCGGCAGGTGCCATTTTCCTTGCTGCCAAGTTCTTGAAAGTGAAGCTTCCATCAGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 4
gtacg-ttcaagaactatttccttctaaa-gcttccaataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
||| | ||      | ||||  ||  |      | || | | | ||| |   ||  || |   | |||| ||| || |||||||||| ||| ||  ||||||| |||||||||||||||||||| |||||||||||||| ||||| || || ||||| ||||||||| | ||||||||| | |||||||||
gtatgatttggttgccatttgtttgaatttaacttcattgaatttattttttttaaatatatttgttcacacactggaaagtggctttcagGCTGAGGACATCGCTCTGCCTGCAATTTAAGCCACATCATATTGCGGCAGGTGCCATTTTCCTTGCTGCCAAGTTCTTGAAAGTGAAGCTTCCATCAGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
-----------gtacgttcaagaactatttccttctaaagcttccaat---aat--tctatgtgccttgtattttcgtcttcat----acaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
            | | ||          |   || | |   ||||| |   |||  ||| | | |||    || || ||||||     ||| || |||| ||||||||| ||  ||||||| ||||||||||||||||||||  | || ||||| || ||||| || || ||||| |||||||| || ||||||||| | ||||| |||
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S119_132V6.2 (Physcomitrella patens), 3'ss of exon 7
----gtacgttcaagaactatttcct---tctaaagcttccaataattctatgtgccttgtattttc----gtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
      || ||  |||  |      |      | |  ||  |  || |   |   |  |||||        | ||      | || ||| |    |||||||| || ||||| || || || ||||||||||||||||||||||| || || || || || || || || ||||| || || ||||| || ||    || 
caaaaaacttttcagagtttgccagtgaacgaatattttgtagaaagtacttcccctctgtataaggaaagggctgatgggagtgtaaattattgtgcagTCTCCGCACATCACTTTGTCTACAATTTAAGCCTCATCATATTGCTGCGGGGGCTATCTTCCTGGCTGCTAAGTTTCTGAAGGTGAACTTGCCTGAGGAA

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S264_33V6.3 (Physcomitrella patens), 3'ss of exon 5
---------gtacgttcaagaactatttccttctaaagcttccaataattctatgtgccttgtattttcgtc-ttcatacaatgaaaagtggct-tgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
            |    |||   |||| |     ||    |  ||| |   | | ||       |     |   | |  ||| |  ||  || | |||||||| || |||||  | ||||||||||| ||||||||||||||||| || || || || ||  | || ||||||||  | ||||||||  | ||   ||||
ttagagatttgccaggtaagctatattacagaagaacatgtttaatgagcatgtctgttgcaagtgagaatagctgaggcaaggggaaagggttgtgcagTCTTCGCACATCGTTGTGCCTGCAATTCAAGCCTCATCATATTGCTGCGGGAGCTATCTTCTTGGCTGCCAAGTTTTTGAAAGTGAATCTGCCCAAAGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S119_132V6.1 (Physcomitrella patens), 3'ss of exon 4
---------gtacgttcaagaa--ctatttccttctaaagcttccaataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
          |  |      ||  ||||||      | | | |     |  |  ||||   ||| |  |   |         | |   || |   ||||| || || || || || || ||||||||||| |||||||||||||| || || || || ||  | || ||||||||||||||||||||  | ||   ||||
tccatagagatttgccaggtaagcctatttttcagaagaacatgtgtaatgtacatgtctgttgcaagtgaatggctgaggcaaggggagggttgtgcagCCTTCGCACCTCGCTATGTCTGCAATTTAAACCTCATCATATTGCTGCGGGAGCTATCTTCTTGGCTGCCAAGTTCCTTAAAGTGAACCTCCCCAAAGAT

upper sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S80_193V6.1 (Physcomitrella patens), 3'ss of exon 4
------gtacgttcaagaa-ctatttccttctaaagctt--ccaataattctatgtgcctt--gtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
       |  |      || |||| |      | ||| |    ||| |   | | ||      ||      | ||      |  | |||| |   |||||||| || ||||| || ||||||||||| ||||||||||||||||| || || || || ||  | || ||||| || || ||||||||  ||||   ||||
ttagagatttgccaggtaagctatgttacagaagagcatgtttaatgagcatgtctgttgcaagtgagaatggctgaggctaggggaaagggttgtgcagTCTTCGCACATCACTGTGCCTGCAATTCAAGCCTCATCATATTGCTGCGGGAGCTATCTTCTTGGCTGCCAAATTTCTGAAAGTGAACCTACCCAAAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
                ttgtatttt  TA-rich tract