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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaagtgttaactcccttgtctttgatttatttgagaggttaaaatgctgcaacctctgttgtttgatgatgcatttttatgataatatatatttttcgaagtagATTTCATACATTTCCCAGAACTGGCCACTTCTACATGTGGTGGCAAGCAATGATGGGATGTACTTGGCAGTTGCTGGCTCTCACGGGCTAGTGCTATATG

Basic information

species Zea mays
transcript GRMZM2G052750_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 5
gttaagtgttaactcccttgtctttgatttatttgagaggttaaaatgctgcaacctctgttgtttgatgatgcatttttatgataatatatatttttcgaagtagATTTCATACATTTCCCAGAACTGGCCACTTCTACATGTGGTGGCAAGCAATGATGGGATGTACTTGGCAGTTGCTGGCTCTCACGGGCTAGTGCTATATG
||||||||||   |  | |       | ||||||  ||||  |||||||  |||    | || ||| | ||    || | || ||| | | | ||| | |||| ||   || || ||||| ||||| |||||| |||| ||||| || |||||||||||||| ||||||||||||||||| |||||||| ||||||||||| ||||
gttaagtgtttgatttcat----caaacttatttaggaggcaaaaatgcctcaatgcatcttatttcaagacttgttataat-atagtttttttttctggaagcagGCATCCTATATTTCACAGAATTGGCCAGTTCTTCATGTTGTTGCAAGCAATGATGGTATGTACTTGGCAGTTGCAGGCTCTCATGGGCTAGTGCTGTATG

upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G39270.1 (Glycine max), 3'ss of exon 6
gttaagtgttaactcccttgtctttgatttatttgagaggttaaaatgctgcaacctctgttgtttgatgatgcatttttatgataatatatatttttcgaagtagATTTCATACATTTCCCAGAACTGGCCACTTCTACATGTGGTGGCAAGCAATGATGGGATGTACTTGGCAGTTGCTGGCTCTCACGGGCTAGTGCTATATG
                   ||      |||  |||  |  || ||   | | ||  |    ||  ||   || | || | | | |  || |  ||| |    |||| |||| || |||||||| ||||||||  ||| ||||||||  || ||| | ||||| |||||||| |||||||||||   ||||||  |  |  | ||||
-------------------gttacgtgtttgattgtcaaattgaa---cagtaattttcactgaatggatatcccttctaaagtt--taaaagtttgt----gtagGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGAATGTACTTAGCAGTTGCTGGTCTTCACGGTTTGATATTGTATG

upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
gttaagtgttaactcccttgtctttgatttatttgagaggttaaaatgctgcaacctctgttgtttgatgatgcatttttatgataatatatatttttcgaagtagATTTCATACATTTCCCAGAACTGGCCACTTCTACATGTGGTGGCAAGCAATGATGGGATGTACTTGGCAGTTGCTGGCTCTCACGGGCTAGTGCTATATG
       ||||  |   |    | ||   || |||| |  |     |  |  |  |||| ||  ||  | ||||  |  ||  ||| |      | || |   ||| |||| || || ||||| || |||||  ||| |||||||||||| ||||| |||||||||||||| |||||||||||    || ||  || |  |||| |
-------gttacgtgtttaaattatg---tacttgataattcgttgt-ttttagtctctatt--ttattaatgc--tcctaatatagttc----tctttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacctctgttgtttgatgatgcatttttatgataatatatatttttcgaagtagATTTCATACATTTCCCAGAACTGGCCACTTCTACATGTGGTGGCAAGCAATGATGGGATGTACTTGGCAGTTGCTGGCTCTCACGGGCTAGTGCTATATG
           gtttgat  putative branch site (score: 5)
                                        tatttttc  putative PPT
            tttgatgatgcatttt  TA-rich tract