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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatttcaaggggtgttgaaggttgtcttgaatgtgtggttacacttactaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG

Basic information

species Glycine max
transcript GLYMA17G36310.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g04210.1 (Oryza sativa), 3'ss of exon 6
gtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatttcaaggggtgttgaaggttgtcttgaatgtgtggttacacttactaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
                  |||  || |  |    |   | ||   |  |   ||     |||||  |  ||        ||  || | |   ||| ||      ||||| |||||  |||||||||| ||||| |||||||||||| ||||||| |||||| | |||||||| || ||||||||||| |||||||||
-----------------gtatgctgatgacactctacctcttgctacctcgctt-----ggtgtacacagtgactaaatattcgtcgatttgcttgctc-----tgcagGACATCAACTGATTTATTTAAAACCGTTTTTGACCTCATGGTATCTGTGACTCTTTTCGTTGGTCGGTTTGACATGCGGATGATGCAG

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

upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G135839_T01 (Zea mays), 3'ss of exon 6
gtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatttcaaggggtgttgaaggttgtcttgaatgtgtggttacacttactaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
                    |   |  | |||    |||    | ||    ||  | |        ||    | | ||| |||||   |  | |||   | | |  ||| ||||| |||||||||||||| ||||  ||||| ||  |||| || |||||| | || |||||||| ||||||||||| |||||||||
-------------------gtagggccttctacaaatttaaccacatcaagttagatgaaaccaacaaaaaagacctga-tgtgt---tgaatttat--atttacacagGACATCAGCTGATTTATTCAAGACAGCATTTGATCTTATGGTCTCTGTGACTCTTTTTGTTGGGCGATTTGACATGCGCATGATGCAG

upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatt----tcaaggggtgttgaaggttgtcttga-atgtgtggttacactta-ctaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
||||||       || | ||   | |  |||  ||  ||   |   ||| | |    |||      | ||||||  || |    | |||  |    |  ||  || ||| | ||||||||| |||||||| || ||||| || ||||||||||| || |||||||| || ||  |||| || ||||||||||| ||| |||||
gtatgtcaatgc-tacactaaaatttcccctttttgcttaccattgtttcaatgtggtcagtaaacgatgaaggcagtttcactaggtgctgacctatctaattatatatttcagAACATCGGCTGATTTGTTTAAAACCGTGTTTGACCTCCTCGTGTCAGTGACAGTATTTCTTGGCCGCTTTGACATGCGGATGCTGCAG

upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatttcaaggggtgttgaaggttgtcttgaatgtgtggttacacttactaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
   |   |  ||   || |  | | ||| ||  ||   | ||  |   |      | |   | || || || |  |     |  || |    || | |   || | |||||| || |||||||| || ||||| || ||||||||||| |||||||||||||||||  |||| || ||||||||||| |||||||||
--gtacgtctatgccaactgatcttttttctttttacatattttagcatctaccaatgtcttctttaaagtaggatacttgggctgatctgtctgattttctatttcagAACTTCAGCTGATTTGTTTAAAACTGTGTTTGACCTCCTCGTATCAGTGACTGTCTTTCTTGGCCGCTTTGACATGCGAATGATGCAG

upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtatgca-tataaaatattttgtttcctagtttttttttaaaattttatttcaaggggt-gttg--aaggttgtcttgaatgtgtggtta--------cactt-actaa-----ataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
|||| | | || |||     ||||  ||   || |  ||||||   ||          ||| | ||||  |||    |||    |   | ||||        |||||  |  |      |  ||||||||||| |||||| | || || |||| ||||||||||||||||||||| ||||| || ||||| || ||||||||||| |||||||||
gtatatgttcaatattcgtcatttatttagttattcctttttttttatgaagaggagggggttagttggaaagaaaatctcagttaactagttaactgtcctcactttgccgatgcttgtgttgcagAACATCAGCTGATCTTTTTAAGACAGCTTTTGACCTCCTGGTATCAGTAACTGTGTTTGTTGGTCGCTTTGACATGCGCATGATGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaggggtgttgaaggttgtcttgaatgtgtggttacacttactaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
                                        tactaaa  putative branch site (score: 1)
                                     acttactaaataat  TA-rich tract