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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG

Basic information

species Zea mays
transcript GRMZM2G142334_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 5
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcat-cgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
                                                                                      | || |     | |   ||||  | |  ||||  ||  ||||||| | | |    |||||| ||| |    |||||||| | | ||  |   |    ||   ||||||||||| |||||||||||| ||| |||| |||||||||||||| | | | |||||||||||||| |||||||| || || |||||||||||
--------------------------------------------------------------------------------------ttcaactattcagt-tgtttttattgcctcatatgtatttcctgtgtttattgt-aactttatttctt-tgatttgttatatttacttaactttgtatg---acagGTTACAAGCCAAGAAACAAGTCTTTCTGCAAGTTGCCGAAGAGTCTTTACGCATGCACATGACTACCATATAAACTCTATTTCAAATAACAG

upper sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 5
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
                                                                                 ||||  | |    |   |   | |||  || |  | |     || || | | || |||    || |  |||  | | || | ||||      | | |||| | |    |||| || | ||| || || ||  |    ||  | ||||| ||||||||||| ||||| ||||| |||||||| ||||| || |||||||||||
---------------------------------------------------------------------------------attttagtatgtagtggagctagttt--tcaagccttgacaattact-tgtttgaaact---ttgtagtttagcgagttctaacac--gttgattgtaaaatat--gtagGTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG

upper sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 5
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
                                                                                 |||| || |    |   |   | |||  || |  | |     || ||   | | | |  |||||| |  || |     || || ||  |   | | |||| | |    |||| || | ||| || || ||  | |  ||  | || || ||||||||||| ||||| ||||| |||||||| ||||| || |||||||||||
---------------------------------------------------------------------------------atttttgtatgtagtggagctagttt--tcaagccttgacaattact---tgtttga--aactttgtagtttagtgagtgcta-acacattgattgtaaaatat--gtagGTAACCAGCCATGAGACCAGTTTGGTGGCTCGATGTCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG

upper sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
                                                                      |||  |||  | |           | || ||  | |||    || ||   |   |       || |  |  | || |    | | | ||  ||    ||||             || |||||| || | ||| ||  | |||| ||  || || || |||||||||||||||||||| ||||| |||||||| |||||||| |||||||||||
----------------------------------------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatattactta-----atattgctcatttgtagactaatagttcatt----tgac------------atatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG

upper sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 5
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
                                                                                ||||  | ||   |||   | |||| |  |  | ||||       |  |    |  ||   | ||| |||  ||| | |||  ||| ||     ||  ||  | ||   |     |||     |||||||||||  | || || || |||||| ||||||||||||| |||||||||||||| ||||| || ||||| |||||
-------------------------------------------------------------------------------aaattggtacat--ggagtctacattcttttataatcat-actgaacaagctattacaatttaatttgtttg-caccacttg--acattgtttttgt--aatatctagGTACACAGCAAT----GAAACAAGCCTATCAGCTAGATGTCGAAGAATATATGCTCATGCTCATGACTATCATATCAATTCCATTTCAAACAACAG

upper sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 5
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgaccc--agtctaa--actgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
                                                                                           |  || | || || |   |  ||  |  | ||      |  |   ||     ||  ||||  |  ||| ||| | || || |  |||  |   |   ||   |||| |  |  || || ||||||   |  || || || || ||| | ||||||||||| |||||||||||||| ||||| || |||||||||||
-------------------------------------------------------------------------------------------catgacattgaatatgcatgtatgtagtgacc----gattgaacaaattggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG

upper sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 5
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtc--taaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
                                                                                          |    ||  |  | || |||   | | || |      | |  ||      |   ||  |  | ||    ||| |  || || |   |  || ||  ||   ||||  ||| ||  || || ||||| |  || || || || ||||| ||||||||||| || ||||||||||| ||||| || |||||||| ||
------------------------------------------------------------------------------------------gttccaaggtatactt-agttattacgtcattggatgt-ttaataagtttagtgttcatgataactgcctgtgat-ctaacacttccagtatacaatatgtagGTATCAAGCCCTGAGACCAGCCTGGTGGCTAGATGTCGTAGAGTTTATGCTCATGCTCACGACTATCATATCAATTCTATTTCAAATAATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
       tttttttttcacaatt  TA-rich tract