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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

Basic information

species Zea mays
transcript GRMZM2G177373_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatca-tctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| |||||  ||| |||||  ||||||    ||||  |   | | |  ||  |||  ||||||  || ||||| |||||||| ||||| |||||||||||||| ||||||||||| ||||||||||||||||||||||| ||||||||||| ||||||||||||||||| || ||
--------------------------gtaatatttttagttcata--cctttttgtcttgtgatg-tactggattgtagttctccttaataa--gtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatca-tctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| |||||  ||| |||||  ||||||    ||||  |   | | |  ||  |||  ||||||  || ||||| |||||||| ||||| |||||||||||||| ||||||||||| ||||||||||||||||||||||| ||||||                             
--------------------------gtaatatttttagttcata--cctttttgtcttgtgatg-tactggattgtagttctccttaataa--gtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTT-----------------------------

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 8
gtaacacttcatctttcactt------aaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacg--gtatttatcatctatgtctgt-----agAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||  | | ||||||           | |  ||| | ||    || || | |  |    ||| ||   |  |  |   || || |    |  || || |   |  ||||  ||  | | | |     |||||| || ||||| || || |||||||| ||||| ||  | ||||| ||||||||||| |||||||| || |||||||| ||||| ||  | ||
gtaattccttatcttttctccttggcaacatctcattgttgagggcaca-aacagtagaagttttgcactgccgttaa-ctaataagcaataactcaatgtgatgcttattttcattttttttctctcagAAATACGCATTGCGAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATCGCTCAAGCAATTCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || | |||   |||  | || | |  |  ||   |   || | |||   || |     ||||||| || ||||| || || |||||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactcctt--gaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 8
--------------gtaacacttcatctttcacttaa----acttcaat-attagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtat-----ttatcatctatgtctgt-agAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
               ||    ||| | ||   |||      |  ||| | |||    || || | |  |    ||| ||   |  || |   || || |    |  || || |  ||     || |||| | | ||| | |||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||| || |||||||||||||| ||  | ||
gtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcaca-aacagtacacgttttgcactg-ctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcagAAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 9
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtc--tgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||    |  ||||   |||   |||  |  ||  |  |   | |    |     |     | |  | |    || |   ||   || |   ||| |||||      | ||    ||||||| || ||||| || || |||||||| ||||| ||  | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | ||
gtaatttcttgtctt---cttttccttgtaatttcttctcattttgtttacacatatccagtagagatttatctttgtttcttaactccttgtggtgtttatgtctcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   ||| ||| |   ||   |||||    |||| |    | || |  | |  ||  || ||    |     | ||   |||  || |    | | |||  ||| |     ||||||| ||  |||| || || |||||||| ||||||||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaa--tttcttctcttcttttttcttca----tagttgtctgttgctccttgttataactggtagaaatttttctctgtaatttaactgagttttctatatt-tctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCGCGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA11G15020.1 (Glycine max), 3'ss of exon 8
---------gtaacacttcatctttcacttaaacttcaatattagtagct----catagccctcttt-gttatgtgataactctgggcttatgatttttttc-----ttaacggtatttatcatctatgtct----gtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
         |     |||    |   | ||    || | | ||  |   |    |||||   ||||| |||   || ||   ||||    |   ||| |||      ||||| |  ||| | || | | | |     ||||||| ||  |||| || || |||||||| ||||||||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaatttctgctcttcttttcttcatagttgttgttgattgttgttgttttcttcatagttgtcttttgttccttgttatagctggtagaaaattttcttttgtaagttaactgagttttttatatttctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCACGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCGATTCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgata-actctgggcttatgatttttttcttaacggtatttatcatctatgt-ctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            || |||| |  ||| |   ||  ||| ||      |    | |  ||||||    |  ||  | |     | |||  |||      |||||| || || || || ||||| || ||||| ||||| ||| | ||||||||||||||||| || ||||| ||||||||||||||||||||| |  |
--------------------------gtaaaattaatcactcttttaccattttcttgaaaactttgatttaagcttattggctgattagttattacttctattgtctggccattgtagAGATACGCATAGCGAGGATATTCAACACATATGGTCCTCGTATGAACATTGATGATGGTCGCGTTGTGAGCAACTTCATTGCTCAGGCTCTCAG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   | ||| ||   || |  ||      | |           |||| |   ||   | |  |   |    || |  ||| || |||||   | ||| |  |   | | |||||||||||| ||||| || || || ||||| ||||| ||  | |||||||| ||||||||||||||||| |||||||||||||| || ||  | ||
gtaa-gttgcatttt---ctcaggctctcgcttcaactttct----ccctgtaatttgcatcaacatattctcattgtcctttattccttaa-attgtttttgtttcttctttgtagAAATCCGCATTGCTAGAATCTTCAACACTTATGGTCCACGCATGAACATCGATGATGGCCGTGTTGTAAGCAACTTCATTGCACAAGCACTCCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
       |   | ||  ||||   |   ||  | | |   |||      ||||| |   |||||  || |  | || | |||    |          ||| ||||       |||||||||||| ||||| || || || ||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
------gtcagttttctactt---ccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcct---------gtttgtcat------ttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv13s0019g00840.t01 (Vitis vinifera), 3'ss of exon 8
---------------------------------------------------------------gtaa-cacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtga-taactctgggcttatgatttttttcttaacggtatttatcatctatg--tctgta---gAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                                                                 |  ||||   ||  | |    |  |  || |||  |  |||    |||       | | |   | |  ||   |||   | |    ||| | |  |||||   |    ||   || ||   || || |||||||||||||| || || || ||||| ||  | ||||| |||||||| || |||||||| ||||| ||||||||||| ||  | ||
gtaaaattgggctccctctctctgatccatacacccaacacacagacacccccacacctacacacattcactcagtcactgatgggatgtgtaaaattgttcactcccttcccctccctctctctatctgaaactctactttccaatgcactctca-ctttattttgaaatggtgatcctataacagAGATACGGATTGCCAGGATATTCAATACTTATGGACCCCGAATGAATATTGATGACGGGCGTGTTGTCAGCAATTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                      |||||   | ||  |   |  ||  |||        |   || | | ||   || | || | | | ||     | |||||  | |        |||||| || ||||| || ||||| ||||| ||||||||  | ||||| ||||||||||| |||||||| ||||| ||||| ||||| ||  | ||
--------------------gtaacttttgtgtttttt-tttttaatcctgaacaaacttcaatgaatatgaagttttaatatgtatgttgtt--tctttatattttggac----agAAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                        tcttaac  putative branch site (score: 2)
            ttatgatttttttctt  TA-rich tract