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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatctctagaccatctcccgaccgcccacatccgatccagccgcgtgcgaggtcgccgttcgatttgactgatcttgctgtttccacccctttgtctgggttcctttctccgcacacatgggtgcgcgcgtgcagGCTCTGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCC

Basic information

species Zea mays
transcript GRMZM2G116840_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G116840_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 3'ss of exon 1
gtaagaatctctag-----accatctcccgaccgcccacatccgatccag---ccgcgtgcga--ggtcgccgttcgatttgactgatcttgc---tgtttccacccctttgtctgggttcctttctccgcacacatgggtgcgcgcgtgcagGCTCTGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCC
|||  || | |||      |||  ||||   |  ||| |||||  ||| |   ||   | |     | | |  ||||   | | |  | |||    | |||    | || | |||| |   || | |  |      |  ||| |  ||||||||  |||||||||||||| |||| ||| ||||||||||||||||||||||||||||||||||| ||| | ||||||||||||| |||||||||| | ||||
gtaccaaaccctaaccctaaccccctcctctctaccctcatcccctccggatcccatctcccctccgccccgattcgccgtaatttgttttgggggtttttttctctctctctctgag---ctgtttgtgtgtgtgtatgtgtgttcgtgcagGTGCTGAGCAAGATCGCGTGCAACCGGCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCTCCCTCCGGCTTCAAGCACAAGGTCACCGACAATCTCC

upper sequence: GRMZM2G116840_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv18s0001g13180.t01 (Vitis vinifera), 3'ss of exon 1
gtaagaatctctagaccatctcccgaccgcccacatccgatccagccgcgtgcgaggtcgccgttcgatttgactgatcttgctgtttccacccctttgtctgggttcctttctccgcacacatgggtgcgcgcgtgcagGCTCTGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCC
                                   | |  ||   |        | | |     |    ||   |  | ||  ||||| ||      |  |||   |    | ||  | |  |||         | | |||   | ||||||||||||||||  ||||| ||||| ||||| | ||| |||||||||||||| || ||||| |||||||| |  ||||| ||  | || |
----------------------------------gtgctctctttctctcactaaagccctaaattccctttttttttttttgtgttttcatttgcgttcctgatattaaatttctcctctgatgt-------tgcgtagGTGTTAAGCAAGATCGCCTGCAATCGCCTCCAGAAAGAGCTGGTGGAATGGCAGGTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTAC
















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|50337825|gb|CO532951.1|CO532951
EST:     GGCAATCCCGGCCCGGCATGGCGAGCCCGTCCTCGTCCCCCTCGCGGAAG                         GCTCTGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGG
genomic: GGCAATCCCGGCCCGGCATGGCGAGCCCGTCCTCGTCCCCCTCGCGGAAGgtaagaatct ... gcgcgtgcagGCTCTGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGG
EST: gi|76013713|gb|DT940883.1|DT940883
EST:     GGCAATCCCGGCCCGGCATGGCGAGCCCGTCCTCGTCCCCCTCGCGGAAG                         GCTCTGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGG
genomic: GGCAATCCCGGCCCGGCATGGCGAGCCCGTCCTCGTCCCCCTCGCGGAAGgtaagaatct ... gcgcgtgcagGCTCTGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGG