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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatattgaactgtacaccaaagtctgcagactttttccctctgtattcagatggctaaacatattttgtttgttttttcttcctttagCATGCTTGTAGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAG

Basic information

species Zea mays
transcript GRMZM2G164185_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 2
gtatgcatattgaa----ctgtacacc---------aaagtctgcagactttttccctctgtattcagatggctaaacatattttgtttgttttttcttcctttagCATGCTTGTAGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAG
||||| |||| |||    |||| ||            |||||    ||| || ||         || |||| || |||||||||| ||| | |||    || |||| |||| ||||||||||| |||||||||| |||| ||||  | |||||||||||||||||||||||||||||||||||||||||||| |||||||||
gtatgtatatggaactgactgtgcattttcacaaaggaagtcatatgaccttgtcttgtctcgctctgatgactgaacatattttctttctgttt----cccttagAATGCCTGTAGAAAAGAGGCTGAGAAAGTTGATTATTCCGTTAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCATGAACCAGAG

upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 2
-----------------gtatgcatattgaactgta-caccaaagtctgcagactttttccctctgtattcagatggcta---aacatattttgtttgttttttcttcctttagCATGCTTGTAGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAG
                  ||||||  |     |||  ||  |||     || ||   |||| | | ||| ||  |   |    ||||| | | ||||| |    | | |   |   ||  |  || |  |||   ||||  |  ||  |||||||  | ||||||||||| || || |||||||| |||||||| || ||||||||||||
gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgt-tatgcacttaattttgtaacatgtat-gtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG

upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 2
------------------gtatgcatattgaactg-tacaccaaagtctgcagactttttccctctgtattcagatggctaaacat-attttgtttgttttttcttcctt---tagCATGCTTGT---AGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAG
                   ||    | || |  |  |  | | ||   || | |  ||  |   ||||  |    |   | || || ||  | | | | |   ||    |   |||||||   |    ||||  |||  |||||     ||  |  | ||    |||||||| |||||||| || |||||||||||||| ||||| ||||| |||
gtgcgttcttttttaacactactggtctttagtttctgtatccaaacttg-ataggttgccttactgttcttgtttctttcaatattatgatatctttatacactgtaatgtgtagCATGGAGGATCAAGAAGGGATCTTGAGAGGATGGACTACCCAATT---AGGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAG

upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 2
gtatgcatattgaactgtacaccaaagtctgcagactttttccctctgtattcagatgg--ctaaacatattttgtttgttttttcttcctttagCATGCTTGTAGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAG
|||||  |  |  |||||   |     | |  |   | ||  |   ||||||    | |   |    || | ||||||||||    ||     |   ||    | ||| ||||   ||||  || ||| ||||    |||||||||||||| || | ||| ||||| |||||||| ||||| |||||||||
gtatgt-tgctagactgtttgct----tgtttattttgttgtcagatgtatttgtgttggtttctttatgtgttgtttgtttcactttgtagCATGGTGGGAATCGAAGAGATTTAGAGATGGCGGATTATTCACCAAGCAGGCATCCTGAGTTCCACTATAAAACCGAGTTTCAGAGCCATGAACCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccctctgtattcagatggctaaacatattttgtttgttttttcttcctttagCATGCTTGTAGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAG
                   ggctaaa  putative branch site (score: 3)
                          catattttgtttgttt  CT-rich tract
                      taaacatattttgttt  TA-rich tract