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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcag

Basic information

species Zea mays
transcript GRMZM2G126453_T01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 22
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttcacctaa-tgggcaactgatgagattcac----tactgt------ctcaaggctaaccagtggtttgttaactttcag
 ||||||||||| ||||| ||||| |||||||| || |||||||||||||||||||| ||||| ||||| || ||||||||||| ||||||||||||||||||| ||  || | || |     | | ||||| |  ||    |||| |      ||||| |||||    || ||| |  ||||||||
TGGACCTCCTGGTACTGGGAAAACCATGCTTGCTAAGGCAGTAGCAACTGAAGCAGGTGCTAACTTCATTAACATATCAATGTCAAGCATTACATCGAAGgtatgatggcatccaaattttgcattaatgaggtgtacagtgtactatgtgattctcaaagctaaatgctgttttttctactttcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA10G02400.1 (Glycine max), 5'ss of exon 21
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttcacctaatgggcaactgatgagattcactac------tgtctcaaggctaaccag----tggtttgttaactttcag
 || || |||||||| |||||||| |||||||| || || |||||||||||||| || || |||||||| || || |||||||| |||||||| || ||||||||| |      | |       |  || | |  | | |      ||  |||  |  ||  |     ||||||  |   || |||
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 18
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattattt-cacctaatgggcaactgatgagattcactactgtc---tcaag-gctaaccagtggtttgttaactttcag------
 || || |||||||| |||||||| |||||||| || || || ||||||||||| || || ||||| || || || |||||||| ||||||||||| ||||||||| || ||  |          |      | ||  || | ||   |||     |||      |  | ||   |||  |      
TGGCCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTGGCAACTGAAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAGgtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatt----tcacctaatgggcaactgatgagattcactac-tgtctca-----aggctaaccagtggtttgttaactttcag
 || || |||||||| |||||||| |||||||| || || |||||||||||||| || || |||||||| || || |||||||| |||||||| || ||||||| | |    | |  || |       |  ||   |||  |   ||  |||     | |  || ||  | ||||||   || |||
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttg-ttgcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA10G02410.1 (Glycine max), 5'ss of exon 18
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttc---acctaatgggcaa----ctgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcag------
 || ||||||||||| |||||||| |||||||| || || |||||||||||||| || || ||||| || || || |||||||| |||||||| || ||||||||| ||    |  |||   |       ||  |  |  |  |   |   |||    | ||  |     | ||   |||  |      
TGGCCCTCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACGTCCAAGgtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaac-cagtggtttgttaactttcag----------
 ||||||||||| |||||||| || ||||| || ||||||||||||||||| || ||||| |||||||||||||| |||||||| |||||||| |||||||||   | |||   | ||   |  ||||    ||   | || |||       |    | | |    || ||  | |           
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaac-tctcataaagtg---atatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 5'ss of exon 21
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttcacctaatgggcaactgatgagattcac-tactgtctcaaggct---aaccagtggt-ttgttaacttt-cag
 ||||||||||| |||||||| || |||||||| |||||||| ||||  ||||| |  || || |||||||| || |||||||| ||||| ||||| ||||||       ||   |||   |  |     |||| ||  || |  ||     |   |||  ||| | || ||||   | |||
TGGACCTCCTGGAACTGGAAAGACCATGCTTGCAAAAGCAGTGGCAAAGGAAGCTGATGCGAACTTCATCAACATCTCAATGTCAAGCATCACATCTAAGgtaactgaatactctatgaaaagttctaccgatttacacacgggatctttttttcaaacttgtgttcttcttaatactgcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 22
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcag--------------------------
 || || ||||| || || || || |||||||| || || || || |||||||| || || || ||||||||||| |||||||| ||||| ||||| |||||  |  || |   | | |     |  |   || |  |  | ||| |  |        |  ||| ||   | ||||                          
TGGCCCCCCTGGAACAGGCAAGACAATGCTTGCTAAGGCTGTTGCTACTGAAGCTGGTGCAAACTTCATCAATATTTCAATGTCAAGCATCACATCTAAGgttatcattgata-agtagcttcttttttctatcccttgatctct-atagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcag

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 21
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtat-tattt-cacctaatgggcaactgatgagattc--------actactgtctcaaggctaaccagtggtttgtta--actttcag
 || |||||||| ||||||||||| |||||||| || || || |||||||| ||||| || ||||| ||||| ||||||||||| || || || || ||||||  ||| | || | ||  ||  |||    || |          | |  ||| |  |   ||          || ||   ||| |||
TGGGCCTCCTGGGACTGGAAAAACAATGCTTGCGAAGGCGGTTGCAACTGAGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58029637|gb|CX725064.1|CX725064
EST:     AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAG                         TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT
genomic: AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttc ... taactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT
EST: gi|32934898|gb|CF039710.1|CF039710
EST:     AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCTAAG                         TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT
genomic: AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttc ... taactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT