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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGCGCAAAGACACACTAACAGAAGATGAAGCTAGATTTTATATTGCAGAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatactagtgtctctatgtttttttgtcccaaaaaagccagatgattctataatttaaataatgtatccctatgttccttttgtcag

Basic information

species Zea mays
transcript GRMZM2G375904_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G375904_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g43570.3 (Oryza sativa), 5'ss of exon 5
TTATGCGCAAAGACACACTAACAGAAGATGAAGCTAGATTTTATATTGCAGAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatactagtgtctctatgtttttttgtcccaaaaaagccagatgattctataatttaaataatgtatccctatgttccttttgtcag
|||||||||| |||||||| ||||||||||| || |||||||| ||||||||||| ||  | || || || |||||||||||||||| |||  |||| ||||| || |  |||||  | | |||||  |      || ||    |||||||| |          ||  || || |    |  |||| ||||
TTATGCGCAAGGACACACTGACAGAAGATGAGGCCAGATTTTACATTGCAGAAACCGTATTAGCAATAGAATCTATTCACAAGCACAGCTACATTCACCGgtatcaaataagtgttcccaagttttggt------aagaaatttgatgattcca----------aagataaccttggtgtttttttttcag

upper sequence: GRMZM2G375904_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv10s0003g05720.t01 (Vitis vinifera), 5'ss of exon 5
TTATGCGCAAAGACACACTAACAGAAGATGAAGCTAGATTTTATATTGCAGAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatactagtgtctctatgtttttttgtcccaaaaaa------gccagatgattctataatttaaataatgtatccctatgttccttttgtcag----
| |||||||| || ||  | || || ||||| || || |||||| |||   | || || |||||||| |||||||||||||||||||||||  | ||  |||    | |   | | | | |    |||  |    | | |       |||  || ||  |    ||| |  |  |||    || |||||   |   |    
TAATGCGCAAGGATACCTTGACTGAGGATGAGGCAAGGTTTTATGTTGGGCAGACAGTCCTTGCCATTGAGTCTATTCACAAGCACAACTACATCCACAGgtttacttcacatctttttgtcccctttgtttatgagatacgtgttaccaattggttagagctgttagactac-tatggtgatattcctacagcatggttg

upper sequence: GRMZM2G375904_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ29515 (Selaginella moellendorffii), 5'ss of exon 4
TTATGCGCAAAGACACACTAACAGAAGATGAAGCTAGATTTTATATTGCAGAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatactagtgtctctatgtttttttgtcccaaaaaagccagatgattctataatttaaataatgtatccctatgttccttttgtcag
||||||| || ||||||||||||||||||||||||||||| ||  | |   |  |  |  | || |||||||| ||||||| |||||||||  ||||  ||||   | | |||        |      || |   ||    |||| |  |||| |   ||   |   |                       
TTATGCGGAAGGACACACTAACAGAAGATGAAGCTAGATTCTACGTCGGGCAGGCCATTTTGGCAATCGAGTCCATTCACAGGCACAACTACATTCACAGgtatgttgcgagt-------cgagaacatggcttgaacttaccag-tttttctgtgtcttctgtgcag-----------------------

upper sequence: GRMZM2G375904_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ28086 (Selaginella moellendorffii), 5'ss of exon 4
TTATGCGCAAAGACACACTAACAGAAGATGAAGCTAGATTTTATATTGCAGAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatactagtgtctctatgtttttttgtcccaaaaaagccagatgattctataatttaaataatgtatccctatgttccttttgtcag
||||||| || ||||||||||||||||| ||||||||||| ||  | |   |  |  |  | || |||||||| ||||||| |||||||||  ||||  ||||   | | |||        |      || |   ||    |||| |  |||| |   ||   |   |                       
TTATGCGGAAGGACACACTAACAGAAGACGAAGCTAGATTCTACGTCGGGCAGGCCATTTTGGCAATCGAGTCCATTCACAGGCACAACTACATTCACAGgtatgttgcgagt-------cgagaacatggcttgaacttaccag-tttttctgtgtcttctgtgcag-----------------------

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|213171755|gb|FM196253.1|FM196253
EST:     GAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCG                         GGATATCAAACCAGATAATCTTTTGTTAGATCGCAGTGGTCACCTGAAGCT
genomic: GAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatact ... cttttgtcagGGATATCAAACCAGATAATCTTTTGTTAGATCACAGTGGTCACCTGAAGCT
EST: gi|211127917|gb|FL461340.1|FL461340
EST:     GAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCG                         GGATATCAAACCAGATAATCTTTTGTTAGATCGCAGTGGTCACCTGAAGTT
genomic: GAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatact ... cttttgtcagGGATATCAAACCAGATAATCTTTTGTTAGATCACAGTGGTCACCTGAAGCT
EST: gi|67018726|gb|CO447475.1|CO447475
EST:     GAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCG                         GGATATCAAACCAGATAATCTTTTGTTAGATCGCAGTGGTCACCTGAAGCT
genomic: GAAACTGTGCTTGCCATCGAGTCTATTCACAAGCACAACTATGTTCATCGgtaccatact ... cttttgtcagGGATATCAAACCAGATAATCTTTTGTTAGATCACAGTGGTCACCTGAAGCT