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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttccactgagcattttagatatgttttctttctatctcaagactatgctgtgtgctgtacctttttatttcttgctgaaattaaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT

Basic information

species Zea mays
transcript GRMZM2G040995_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g18140.1 (Oryza sativa), 3'ss of exon 6
---cttccactgagcattttagatatgttttctttctatctcaagactatgc-tgtgtgctgtacctttttatttcttgctgaaattaaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
    ||  |  |||| |   | |  ||| | | || | | |  |   ||| | | | || |||| |||||   ||||    || ||| |||| | ||||| ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||||
tttattatatggagcttagcacacttgtatgccttatctatttaagatatacctttttgttgtaacttttagcttct----gagattgaaaccttgtgttgtagTGCTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGTGATCGATTCAGAT

upper sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G47700.1 (Glycine max), 3'ss of exon 6
cttccactgagcattttagatatgttttctttctatctcaagactatgctgtgtgctgtacctttttatttcttg-----ctgaa-attaaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
    || |     ||||   |   | ||  | |  |   |||| |    ||| || |  |  || ||| ||||||     || |  | | ||| ||  |  | ||||||||||||||||| || ||||| || ||||||||||||||||||||||| |||||||| || || ||||| || || |||||||| |||   || || |
---tcatttgatcttttgtcttaatattgatacagtt--aagaat-ccttgtttgattaaaattattaattcttgtgattctaactactgaaatatttttctgtagTGTTTGTTTGCCACCGAGACATTTAGCATTGGTTTGAACATGCCTGCAAAAACTGTTGTTTTCACAAATGTCCGGAAGTTTGACGGGGACAAGTTTAGGT

upper sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 6
lower sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------------cttccactgagcattttagatatgttttctttctatctcaagactatgctgtg-tgctgtacctttttat------ttcttgctgaaatt-aaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
                   | || |   ||| ||    ||  || ||  || |    |    ||  |||| || | | | ||  | |      ||    ||||| ||  ||  ||  | |  |||||||||||||| ||||| ||||| |||||||| ||||||||||| |||||||| ||||| ||||||||||| || || ||||| ||||||   ||| | |
gtaggtgaaggcgtagaactacaattttcatattgtcaattcttgctaccttttgttatgtaattttgtgatgttttcctttagtttgaagtattgccactgaagtttgaagtattttctcttagTGTTTGTTTGCAACAGAGACATTTAGTATTGGATTGAACATGCCGGCAAAGACGGTTGTATTTACCAATGTACGTAAGTTTGATGGAGACAAGTTCCGGT

upper sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0009g01750.t01 (Vitis vinifera), 3'ss of exon 6
cttccact-gagcattttagatatgttttctttctatctcaagactatgctgtgtgctgtacctttttatttcttgctgaaat--taaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
     | | ||  ||| |||  |    ||  | | ||    |  |  ||||   |  |  |  ||||||  | |   | ||||  | |||  |  |  | |||||||||||||||||||| || ||||| ||||||||||||||||| ||||||||||| |||||||| ||||| || |||||||| || ||   ||| ||||
--aaaattagaatattctagtcac-cgtttgtccaatggtgaatccttgctaattaattaaattttttaggtgtgctttaaatattgaaatgttttcctttagTGTTTGTTTGCCACAGAGACTTTCAGCATTGGTTTGAACATGCCAGCAAAGACTGTAGTGTTTACAAATGTTCGTAAATTTGATGGGGATAAATTTAGAT

upper sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 6
lower sequence: PP1S69_14V6.1 (Physcomitrella patens), 3'ss of exon 6
-------cttccactgag-cattttagatatgttttctttctatctcaagactatgctgtgtgctgtacctttttatttcttgctgaaattaaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
        |     || |  | |   ||| ||  ||   |  |  ||| |    || |  |    |  |   |  ||  |    ||   ||      |||||    |||| || ||||| ||||||||||||||||| || ||||||||||| || || |||||||| |||||||| || || || ||||| || |||  |||  |||
cgagaaaataagtttgtgatactactgatgtgagttgcattcaattcaggtaagtgttaggaaaggagctggtggataac--attgtctttg-----tggtgg-gcagTGCTTATTTGCAACAGAAACATTCAGTATAGGCTTGAACATGCCAGCCAAAACTGTTGTATTTACCAACGTTCGTAAGTTTGATGGGGACAAATTTCGAT

upper sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 6
lower sequence: EFJ21372 (Selaginella moellendorffii), 3'ss of exon 6
cttccactgagcattttagatatgttttctttctatctcaagactatgctgtgtgctgtacctttttatttcttgctgaaattaaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
                                            |||  | |||||   | | |||  |||||| || |  |        | ||||  ||||  ||||||| ||||| ||||||||||||||  |||| |||||||| ||||| || ||||| || || || || || ||||| || |||   ||  | |
-------------------------------------------gtatatt-tgtgc---agcgtttcgtttcttcctaagtt----gttggatgttgcagTGCCTGTTTGCTACAGAGACATTCAGTATTGGACTGAATATGCCTGCCAAGACAGTCGTGTTCACGAACGTTCGCAAGTTTGATGGTGACAAGTTTCGCT

upper sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 6
lower sequence: EFJ23732 (Selaginella moellendorffii), 3'ss of exon 6
cttccactgagcattttagatatgttttctttctatctcaagactatgctgtgtgctgtacctttttatttcttgctgaaattaaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
                                            |||  | ||| |   | | |||  |||||| || |  |        | ||||  ||||  ||||||| ||||| ||||||||||||||  |||| |||||||| ||||| || ||||| || || || || || ||||| || |||   ||  | |
-------------------------------------------gtatatt-tgtac---agcgtttcgtttcttcctaagtt----gttggatgttgcagTGCCTGTTTGCTACAGAGACATTCAGTATTGGACTGAATATGCCTGCCAAGACAGTCGTGTTCACGAACGTTCGCAAGTTTGATGGTGACAAGTTTCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgctgtgtgctgtacctttttatttcttgctgaaattaaaacatggtgttatagTGTTTGTTTGCCACAGAAACATTCAGTATTGGTTTGAACATGCCTGCAAAGACTGTTGTGTTTACCAATGTGCGAAAATTTGACGGAGACCGATTCAGAT
                               tgaaattaaaacat  TA-rich tract