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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtttgttgtgtttgctgtactacttattttaaacattgtttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA

Basic information

species Zea mays
transcript GRMZM2G181002_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g51020.1 (Oryza sativa), 3'ss of exon 3
--taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtt-tgttgtgtttgctgtactacttattttaaacatt-gtttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
  |    |||| |||| |||    |  ||   | |         || || |   ||| || |||  | |      ||  ||  |||| || |||| |||||||||| |||||||| ||||||||||| ||||||||||||||| |||| || ||||| || ||||||||||||||||| || ||||| || |||||||||||||
gttctgagactattcttcaagctga--tgtattaggactgtctgat-atctttcaaatttatgtcat-tacatcctataacaaatttgaagcatttgtttgcagGAACATTTGCTTATAGTCTGTGAGCTTCTGAAGGCAAATTTGTATGAATTTCAAAAGTTCAACAGAGAATCAGGAGGCGAGGTCTATTTCACAATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G33560.1 (Glycine max), 3'ss of exon 3
taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtttgttgtgtttgctgtactacttatt--ttaaacattgtttg-cagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
    | |||  | |  |      | ||  || |  |      |       |  || |||||  |  |  || ||  |||  ||  ||   |||||| || ||||| |||||| | ||||| |||||||| || || |||||  |||| |||||||| ||||| || ||||||||||| ||||| || ||||| ||||||||||
--gtttacttctgttaatttttgaatggccttgtttatttatagttctacaccaaatttgtcat-ctaactttatcactctttcttttcccattgtatggcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G06160.1 (Glycine max), 3'ss of exon 5
taaatgactcttctccaaaacaaattgctctcgagtcacagca-tcatataataaagtttgt-tgtgtttgctgtactacttattttaaacattgtttg-cagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
    | |||  | |  |      | ||| || |  |   |  | |  || |  ||| ||    | || || |   |||  || ||||   |||||| || |||||||||||| | ||||| ||||| || || || |||||  |||| |||||||| ||||| || ||||||||||| ||||| || ||||| ||||||||||
-tgtttacttctgttaattttttaatgc-cttgtttattaatagttgtacaccaaatttgccatctgatttcatcactctttcttttcc-cattgtatggcagGAGCATTTGTTAATAGTATGTGAGCTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA09G29970.1 (Glycine max), 3'ss of exon 3
taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtttgttgtgtttgctgtactacttattttaa---acattgt-ttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
   |||  | |    ||  |  |   ||| ||   | | |  || || |    || | | |  |   |  ||  |  || | ||||     | ||||  ||||||| |||||| | ||||| |||||||| || || || ||  | || |||||||| ||||| ||  |||||||||||||||| || || ||||| |||||||
---atg-ttttaaaacattatgaggggctatccttttaaactatgatgttgagaaatatctgtttactagtgatcatctgactttactacgccttgtactgcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCCAACTTATATGAGTTTCACAAATTTAATCGAGAATCAGGGGGTGAAGTGTATTTCACGATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------------------------------taaatgactcttctccaa------aacaaattgctctcgagtcacagcatcata-taataaagtttgttg--tgtttgctgtactacttattttaaacattgtttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
                                                                           | ||  | | |    |||      | || ||  || |    | | | | |   | || |    ||||| |  |||||| ||||     |    | ||  || |||||||||||| ||||| || || ||||||||||| ||||| ||||| |||||||| || ||||| |||||||||||||| ||||| ||||| ||||| |||||||
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT3G17750.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------------------taaatgactcttctccaaaacaaattgctc---tcgagtcacagcatcatataataaagtttgttgtgtttgctgt-actac--ttattttaaacattg--tttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
                                                           |   |   |  | |     |  ||||| ||   ||     | | |||   |    |   |   |  || |  |  | |||    ||| ||  ||  |    ||||||||||||  || | ||||| ||||||||||| ||||||||  |||| ||||| || || || || || ||||||||||| |||||||| ||||| |||||||
gtaagtagatagatgcagaattgtatctttttcttttcaacaccgggtggatattctgctgctttggtgctatgatgtatcaattgttcgattcagtaaagaacatgggacgtgagcctacatcatgatgccattgactgtgattaattggaatctcagttttgcagGAGCACCTGTTAATAGTATGTGAACTTCTCAAGGCAAACTTGTATGAGTTCCAAAAGTTTAATAGGGAATCAGGGGGAGAGGTTTATTTCACTATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G73460.1 (Arabidopsis thaliana), 3'ss of exon 3
---taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtttgttgtgtttgctgtactacttattttaaacattgtttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
    ||||          || || ||| |    | |  |  ||  || ||||      ||   |||  |||| ||||     |    | ||  || |||||||||||| ||||| || || ||||||||||| ||||| ||||| ||||| || || ||||| |||||||||||||| ||||| ||||| ||||| |||||||
attgaaatataaaggggtcataataaactaag-taggtttgcattattatatctctttgtggattg--tttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAATTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtttgttgtgtttgctgtactactta------ttttaaacattgttt-gcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
        | ||  |||  | |  ||   |     |    |  ||  |||    | |||   |||  ||||  | || | |      |  |   | || ||| |||||| |||||  | || || || |||||||| ||||||||  |||| |||||||| ||||| || |||||||| || || ||||||||||||||||||||||
-------gtttttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S47_312V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtttgttgtgtttgctgtact-acttattttaaacattgtttg---------cagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
                 |     ||   |     || || |       ||    || ||| |||||  |    ||| |  |  |    ||||| ||| |   || | |||| | |         |||||||||||| | ||||| |||||  | ||    || ||| |||||||||| || |||| ||||||||||||||| |||||||| ||||| || |||||  
gtaatcacagtggcttttgtgctacatgttgatgaatcatacgaactacgttatactgcagcatatg-tgtgctttttctttctcctcgtactgactaaggctagatattggtggtggcgatttcagGAGCATTTGTTCATAGTTTGTGAGTTACTTCGAGCTAATTTGTACGAGTTCCACAAATACAACAGAGAATCAGGTGGTGAGGTGTACTTTACGATGCCCC

upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S381_39V6.1 (Physcomitrella patens), 3'ss of exon 11
-----------------------------------------------------------------taaatg-actcttctccaaaacaaattgctctcgagtc-acagcatcatataataaagtttgt---------tgtgtttgctgta------------ctacttattttaaacattgtttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
                                                                 | |||| || | |    | | |    |||   |||||     |   |    ||   ||| |||         ||  |||| | ||            |||  ||||        || ||| |||||||  || | || || |||||  | ||    || || || ||||||||||| |||| ||||||||||||||| || ||||| ||||| || |||||  
gtaattagggtggcctttttgttgcatgtctttgagccatgcggacttctctgtactgtagaaagtgaatgtacacctacgtatagctgtgtgcgtgcgagtttgtggaggcgcgcaagcgagtgtgtgtacacctttgcctttggtttatataggtaagcgctaaatattggtggtggtgattgtagGAGCACCTGTTCATCGTTTGTGAGTTACTTCGAGCTAACCTATACGAGTTTCATAAATACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atataataaagtttgttgtgtttgctgtactacttattttaaacattgtttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
                              tacttattttaaacat  TA-rich tract