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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCCAATCACAATTTTCAGCGCTAGATAGTTCTTCACGGCTTGGACTAAAACCATGGCAAAAATTGAAACCTTCTGTAGAGATATTGTGTAACAGCCAGgcaagtatttctaaattcaactgttgtttctttctttctatgtactgttcccctttgctgagggccaatgttaccactaacaaaaaaggcatcactaata...

Basic information

species Oryza sativa
transcript LOC_Os12g06810.4
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06810.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 16
TGGCCAATCACAATTTTCAGCGCTAGATAGTTCTTCACGGCTTGGACTAAAACCATGGCAAAAATTGAAACCTTCTGTAGAGATATTGTGTAACAGCCAGgcaagtatttctaaattcaactgttgtttctttctttctatgtactgttcccctttgctgagggcc--aatgttaccactaacaaaaaaggcatcactaata
||  ||||||||  | ||||  |||||||||||||| |||||||||||||| ||||||||||||   || || | | | ||||||||||| || | ||||| |||| | || ||||  | |||   | | | | |    |  | || | |  | || |  |       ||   ||||| |  ||     |  |    |  ||
TGCTCAATCACAGCTCTCAGTTCTAGATAGTTCTTCGCGGCTTGGACTAAAGCCATGGCAAAAAACAAAGCCATGTATTGAGATATTGTGCAATAACCAGgtaagt-tctcaaaatatagctgcattctatatttagacacatgctttcctacattacgaataaatgtaagaataccattg-caggggggaaaagtgtctta

upper sequence: LOC_Os12g06810.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G079022_T01 (Zea mays), 5'ss of exon 1
TGGCCAATCACAATTTTCAGCGCTAGATAGTTCTTCACGGCTTGGACTAAAACCATGGCAAAAATTGAAACCTTCTGTAGAGATATTGTGTAACAGCCAGgcaagtatttctaaattcaactgttgtttctttctttctatgtactgttcccctttgctgagggccaatgt-----taccac--taacaaaaaaggcatcactaata
||  ||||||||  | ||||  |||||||||||||| |||||||||||||| ||||||||||||   || || | | | ||||||||||| || | ||||| |||| | || ||||  | |||    |||| | |||  |   | ||||  |||    |  |    |||||     |||||   |     |   || |  | |    
TGCTCAATCACAGCTCTCAGTTCTAGATAGTTCTTCGCGGCTTGGACTAAAGCCATGGCAAAAAACAAAGCCATGTATTGAGATATTGTGCAATAACCAGgtaagt-tctcaaaatatagctgca--ttctatatttagacaca-tgttttcctacattacgaataaatgtaagaataccatgttcctgcaggggggaaaagtg---

upper sequence: LOC_Os12g06810.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G012154_T01 (Zea mays), 5'ss of exon 1
TGGCCAATCACAATTTTCAGCGCTAGATAGTTCTTCACGGCTTGGACTAAAACCATGGCAAAAATTGAAACCTTCTGTAGAGATATTGTGTAACAGCCAGgcaagtatttctaaattcaactgttgtttctttctttctatgtactgttcccctttgctgagggccaatgt-----taccac--taacaaaaaaggcatcactaata
||  ||||||||  | ||||  |||||||||||||| |||||||||||||| ||||||||||||   || || | | | ||||||||||| || | ||||| |||| | || ||||  | |||    |||| | |||  |  || ||||  |||    |  |    |||||     |||||   |     |   || |  | |    
TGCTCAATCACAGCTCTCAGTTCTAGATAGTTCTTCGCGGCTTGGACTAAAGCCATGGCAAAAAACAAAGCCATGTATTGAGATATTGTGCAATAACCAGgtaagt-tctcaaaatatagctgca--ttctatatttagacata-tgttttcctacattacgaataaatgtaagaataccatgttcctgcaggggggaaaagtg---

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|88906970|gb|CI376042.1|CI376042
EST:     AACCATGGCAAAAATTGAAACCTTCTGTAGAGATATTGTGTAACAGCCAG                         TGCGGGCTTATGTCTGGAAGAAGCCAGAGGATTTGATTCTTAACTACAAAG
genomic: AACCATGGCAAAAATTGAAACCTTCTGTAGAGATATTGTGTAACAGCCAGgcaagtattt ... ttggccacagTGCGGGCTTATGTCTGGAAGAAGCCAGAGGATTTGATTCTTAACTACAAAG