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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcccctatttttgcgacttatggtgatgtcccttgctgtctcggcaataaagtatcaccagactgcaggatttaggccgcccaggtccaattgtattgtaataaaaacttttaaactggtcagtttgtgtaattaaaactttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA

Basic information

species Zea mays
transcript GRMZM2G053644_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 8
gtatgttcccctatttttgcgacttatggtgatgtcccttgctgtctcggcaataaagtatcaccagactgcaggatttaggccgcccaggtccaattgtattgtaataaaaacttttaaactggtcagtttgtgtaattaaaac---tttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
                                                                                    |  |       ||  | ||  | ||| |  |    | |   || ||||   | || ||||    ||||  | |||||  ||||||||||| |||||||| ||||||||||||||||||||||||||||||||||| ||||| ||| |||||||| |||||||||||||||| ||||||||||||
------------------------------------------------------------------------------------gtacgtaattgatgctcttacagtaatagataaatagc--atctgtttacttgatcaaaatatgttttcgatatttt-ctccagTGAGAGCGCAAATGAATACACAGATGATGAGGATGCAAGCTGGAAAGTCCGGAGGGCTTCAGCAAAGTGCTTATCTGCAATTATAGTATCTCGTCCTGAA

upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g07340.1 (Oryza sativa), 3'ss of exon 6
gtatgttcccctatttttgcgacttatggtgatgtcccttgctgtctcggcaataaagtatcaccagactgcaggatttaggccgcccaggtccaattgtattgtaataaaaacttttaaactggtcagtttgtgtaattaaaac---tttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
                                                                 ||  ||  | |  |     |  |       ||  | ||  | ||| |  |   ||  |  || ||||   | || ||||    ||||  | |||||  ||||||||||| |||||||| ||||||||||||||||||||||||||||||||||| ||||| ||| |||||||| ||| |||||||||||| ||||||||||||
-----------------------------------------------------------------aggatgaggaagatgatgagtacttaattgatgctcttacagtaatagata--aatgttatctgtttacttgatcaaaatatgttttcgatatttt-ctccagTGAGAGCGCAAATGAATACACAGATGATGAGGATGCAAGCTGGAAAGTCCGGAGGGCTTCAGCAAAGTGCTTATATGCAATTATAGTATCTCGTCCTGAA

upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G00570.1 (Glycine max), 3'ss of exon 7
gtatgttcccctatttttgcgacttatggtgatgtcccttgctgtctcggcaataaagtatcaccagactgcaggatttaggccgcccaggtccaattgtattgtaataaaaacttttaaactggtcagtttgtgtaattaaaactttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
                                                                  |  ||     ||| |  | |  || | || |     ||  || ||   ||| |   |  ||   |||| ||||     |   |   |  ||| || |||||| ||||||||||| || ||||||||||| ||||  ||||||||||| || || ||| || | || ||| || | ||| | || || ||||||||||| 
------------------------------------------------------------------gtatgtgctttttggttcacttagctgcagta----tgggattaatgttttcatgatattcttcttgt-taatcttcccaaatgtgctattttttgcagTGACAGTGCAAATGAATATACAGATGATGAAGATGTCAGCTGGAAAGTTCGGAGAGCAGCAGCTAAATGCTTAGCAGCATTGATTGTTTCTCGTCCTGAG

upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 8
gtatgttcccctatttttgcgacttatggtgatgtcccttgctgtctcggcaataaagtatcaccagactgcaggatttaggccgcccaggtccaattgtattgtaataaaaacttttaaactggtcagtttgtgtaattaaaactttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
                                                                  |  ||     ||| |  | |  || | ||   |||| |  || ||  |||| |   |  ||   ||    |  | |||  |  |   ||||||   |||||||||||||||||| || ||||||||||| |||| |||||||||||| || || ||| || | || ||  || | ||| | || || ||||||||||| 
------------------------------------------------------------------gtatgtcctttttggttcccttagctgca---gtatgg--attaattctttcatgatattcttgttaatcatctcaaatgtgctg-tattttg---cagTGAGAGTGCAAATGAATATACAGATGATGAAGATGTAAGCTGGAAAGTTCGGAGAGCAGCAGCTAAATGTTTAGCAGCATTGATTGTTTCTCGTCCTGAG

upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgttcccctatttttgcgacttatggtgatgtcccttgctgtctcggcaataaagtatcaccagactgcaggatttaggccgcccaggtccaattgtattgtaataaaaacttttaaactggtcagtttgtgtaattaaaactttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
                                                                             | ||  |       | || | | |  |||    |     |||   ||  |  ||  | | | | ||| |   |     ||| |  ||| ||||||||||||||||||||||||||||| ||||| |||||||||||  | || ||| |  | || |||||| | | | | || || || ||| |||| 
----------------------------------------------------------------------------gtaagttctgatttattcattggaacagtagcctagctccttacggtgcaccatt-atctcactgaaa-taagtctttctttctcacagCGAGAGTGCAAATGAGTACACAGATGATGAAGATGCCAGCTGGAAAGTTAGGAGAGCAGCGGCCAAATGCCTAGCAGGATTAATCGTTTCGCGTTCTGAG

upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 9
gtatgttcccctatttttgcgacttatggtgatgtcccttgctgtctcggcaataaagtatcaccagactgcaggatttaggccg-cccaggtccaattg---tattgtaataaaaacttttaaactggtcagtttgtgtaattaaaactttttaacattttgt---tccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
                                                                      | | | | |   | |    | ||  | |||   ||| ||   || || || |  |    | | ||  |   | ||  ||  |     || ||||   |  ||||||||||||| ||| || ||||||||||||||||  ||||||||||| || || ||| || | || ||| || | ||  | || || ||||| ||||||
----------------------------------------------------------------------gtatgttgttcactggtttatgtatatttgagctatcgtgtaaataatttatgcatgcttgaattgttactaatatcacagtactgtatcttgtatttgtagTGAGAGTGCAACTGAATATACAGATGATGAGGATGTCAGCTGGAAAGTTCGAAGAGCAGCAGCTAAATGCTTAGCAGCTTTGATTGTTTCTCGACCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacttttaaactggtcagtttgtgtaattaaaactttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCATCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
                                    ttttaac  putative branch site (score: 2)
                                            ttttgttcc  CT-rich tract
                   tttgtgtaattaaaac  TA-rich tract