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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atactttacacctttattttttagatggaagcctggaattgtgctctgttatctgtagtcatgcattatatttgatcttaaatcttattctctattgtagAGTCGGCATCTTGAAGTTCAGTTGCTTTGTGATCAATATGGTAATGTAGCAGCACTTCACAGTCGTGATTGCAGTGTGCAACGGCGACACCAGAAG

Basic information

species Zea mays
transcript GRMZM5G858094_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g22940.1 (Oryza sativa), 3'ss of exon 8
---atactttacacctttattttttagatggaagcctggaattgtgctctgttatctgtagtcatgcattatatttgatcttaaatcttattctctattgtagAGTCGGCATCTTGAAGTTCAGTTGCTTTGTGATCAATATGGTAATGTAGCAGCACTTCACAGTCGTGATTGCAGTGTGCAACGGCGACACCAGAAG
   | |   ||    ||     | |  ||  |        || ||  |  | | ||  | || |  |  |  |    ||| | |   || || |||  |||||||||| ||||||||||||||||||||||||||||||||||| || |||||||||||||||||||| ||||||||||| |||||||||||||| |||
tataaatactaggatttagggatcttcatatagtttatacatggtatttagatttcatttgtaaccctattgaagacatcctga---ttgttgtcttatgtagAGTCGACATCTTGAAGTTCAGTTGCTTTGTGATCAATATGGCAACGTAGCAGCACTTCACAGTCGAGATTGCAGTGTACAACGGCGACACCAAAAG

upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 4
atactttacacctttattttttagatggaagcctggaattgtgctctgttatctgtagtcatgcattatatt-tgatcttaaatcttattctctattgtagAGTCGGCATCTTGAAGTTCAGTTGCTTTGTGATCAATATGGTAATGTAGCAGCACTTCACAGTCGTGATTGCAGTGTGCAACGGCGACACCAGAAG
     ||| |    || |     |||  | |    ||||       || |   || |||||||  |  |||| ||||  |  || || ||    |  |||||| || ||||| ||||| ||||| ||||||||||| || || ||||| |||||  | || || |||||||||||||| ||| || | ||||| |||
----gttaga----taatccactgatctatgatctgaatgaa--catgattcttggagtcatg-gtcgtattctgattatctattttgtttctaa--gtagAGCCGACATCTAGAAGTCCAGTTACTTTGTGATCAGTACGGAAATGTCGCAGCTTTGCATAGCCGTGATTGCAGTGTTCAAAGGAGGCACCAAAAG

upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA04G11550.1 (Glycine max), 3'ss of exon 4
-atactttacacctttattttttagatggaagcctggaattgtgctctgttatctgtagtcatgcattatatt-tgatcttaaatcttattctctattgtagAGTCGGCATCTTGAAGTTCAGTTGCTTTGTGATCAATATGGTAATGTAGCAGCACTTCACAGTCGTGATTGCAGTGTGCAACGGCGACACCAGAAG
  ||  | |  |  | || ||| |  || |    || | |||   |||      || |||||||  |  |||| ||||  |   | || ||    |  |||||| || ||||| ||||| ||||| ||||||||||| || |||||||| |||||  | || || |||||||||||| | ||| || | ||||| |||
gttagataatccactgatctttgatctgaa----tgaacttg-attct------tggagtcatg-gtcgtattctgattatctcttttgtttctaa--gtagAGCCGACATCTAGAAGTCCAGTTACTTTGTGATCAGTACGGTAATGTCGCAGCTTTGCATAGCCGTGATTGCAGTATTCAAAGGAGGCACCAAAAG

upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 5
-----atactttacacctttattttttagatgg-aagcctggaattgtgctctgttatctgtagtcatgcattatatttgatcttaaatcttattctctattgtagAGTCGGCATCTTGAAGTTCAGTTGCTTTGTGATCAATATGGTAATGTAGCAGCACTTCACAGTCGTGATTGCAGTGTGCAACGGCGACACCAGAAG
     ||  | |||  |  | |  |||  |||   |||||   |   |   | |||    |   | |    ||||  |     ||   |    ||||  |   |||||||| ||| | ||||||||||| || ||||||||  |||| ||||| ||||| || || || |||||||||||||| ||| |||| || || |||
gtgatattatctactgcgctctgatttgaatgctgagccttttag-atttccagttgctggagtttacttcttattctgacaattcgtttggtttcttcaaactagAGTCGCCATTTAGAAGTTCAGTTACTATGTGATCAGCATGGCAATGTTGCAGCCCTGCATAGCCGTGATTGCAGTGTTCAAAGGCGTCATCAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttatctgtagtcatgcattatatttgatcttaaatcttattctctattgtagAGTCGGCATCTTGAAGTTCAGTTGCTTTGTGATCAATATGGTAATGTAGCAGCACTTCACAGTCGTGATTGCAGTGTGCAACGGCGACACCAGAAG
                        atttgat  putative branch site (score: 5)
                                     tcttattctctatt  putative PPT
                   attatatttgatctta  TA-rich tract