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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatattagtcaatacactagttcttatactgcaagtaatatggcaaaagttacttacaggctggtaatttgttttgcagGACATCAACTGATTTATTTAAAACTGTCTTTGACCTCATGATATCTGTGACTCTGTTTGTTGGTCGATTTGACATGCGTATGATGCAG

Basic information

species Zea mays
transcript GRMZM2G018356_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g04210.1 (Oryza sativa), 3'ss of exon 6
gtatgatattagtcaatacactagttctta-tactgcaagtaatatg-gcaaaagttacttacaggctggta-atttgttttgcagGACATCAACTGATTTATTTAAAACTGTCTTTGACCTCATGATATCTGTGACTCTGTTTGTTGGTCGATTTGACATGCGTATGATGCAG
||||| |  |     | || |||  ||||  |||  |   |  | |   ||     ||  ||   |  | |    ||| | ||||||||||||||||||||||||||||| || |||||||||||| ||||||||||||| || |||||||| ||||||||||| |||||||||
gtatgctgatg----acactctacctcttgctacctcgcttggtgtacacagtgactaaatattcgtcgatttgcttgctctgcagGACATCAACTGATTTATTTAAAACCGTTTTTGACCTCATGGTATCTGTGACTCTTTTCGTTGGTCGGTTTGACATGCGGATGATGCAG

upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 5
---------------------gtatgatattagtcaatacactagttctta---tactgcaagtaatatggcaaaagttactt---acaggctggta-atttgttt-----tgcagGACATCAACTGATTTATTTAAAACTGTCTTTGACCTCATGATATCTGTGACTCTGTTTGTTGGTCGATTTGACATGCGTATGATGCAG
                     ||||  | ||   || |    |  || |||   |  | ||||   | | |  || |||   |   | | |  | || | ||| |      ||||| |||||  |||||||||| ||||| || ||||||||| |  |||| |||||| | || ||||| || |||||||||||||||||||||
gtatgtatgtatgtatataaagtattttgtttcccagtttttttttttttaatttttttcaaggggtgttg--aaggttgtcttgaatatgtggttacacttgctaaataatgcagAACATCTGCTGATTTATTCAAAACGGTTTTTGACCTCCTAGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG

upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 5
-----------------gtatgatattagtcaatacactagttc--ttatactgcaagtaatatggcaaaagttacttacaggctggtaat--ttgttt-----tgcagGACATCAACTGATTTATTTAAAACTGTCTTTGACCTCATGATATCTGTGACTCTGTTTGTTGGTCGATTTGACATGCGTATGATGCAG
                  |||  | ||    | |    |  |    || || | ||||   | | | |     |  | |  |  |||| |   ||  |      ||||| |||||  |||||||||| ||||| || ||||||||| || |||| |||||| | || ||||| || |||||||||||||||||||||
gtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatttcaaggggtgttgaaggttgtcttgaatgtgtggttacacttactaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG

upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------gtatgatattagt-caatacactagttcttata-ctgcaagtaatatggcaaaagttacttac--aggctggt-------aatttgttttgcagGACATCAACTGATTTATTTAAAACTGTCTTTGACCTCATGATATCTGTGACTCTGTTTGTTGGTCGATTTGACATGCGTATGATGCAG
                |||| ||  | |  |  ||   || |   | || | | |    |    |||||    |||   ||||| |       | ||| | || ||| || ||| ||||||| ||||||||||| ||||||||| |  |||| |||||| | ||| |||| || ||||||||||| |||||||||
gtacgtctatgccaactgatcttttttctttttacatattttagcatctaccaatgtcttctttaaagtaggatacttgggctgatctgtctgattttctatttcagAACTTCAGCTGATTTGTTTAAAACTGTGTTTGACCTCCTCGTATCAGTGACTGTCTTTCTTGGCCGCTTTGACATGCGAATGATGCAG

upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------------------gtatgat-attagtcaatacactagttcttatactgcaagtaatatggcaaaagttacttacaggctggtaatttgttttgcagGACATCAACTGATTTATTTAAAACTGTCTTTGACCTCATGATATCTGTGACTCTGTTTGTTGGTCGATTTGACATGCGTATGATGCAG
                                             |||||  |  ||    |    | |     | |   ||  |||   |  ||  ||         || | |   |||| |||||| |||||| ||||| | ||||| || |  ||||||||| || |||| || ||| ||||||||||||| ||||||||||| |||||||||
gtatatgttcaatattcgtcatttatttagttattcctttttttttatgaagaggagggggttagttggaaagaaaatctcagttaactagttaactgtcctcactttgccgatg-cttgtgttgcagAACATCAGCTGATCTTTTTAAGACAGCTTTTGACCTCCTGGTATCAGTAACTGTGTTTGTTGGTCGCTTTGACATGCGCATGATGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatactgcaagtaatatggcaaaagttacttacaggctggtaatttgttttgcagGACATCAACTGATTTATTTAAAACTGTCTTTGACCTCATGATATCTGTGACTCTGTTTGTTGGTCGATTTGACATGCGTATGATGCAG
                          tacttac  putative branch site (score: 1)
                                           tttgtttt  putative PPT
                                        taatttgtttt  TA-rich tract