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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatgaacctcctcaacaataattgtgcctggcttttgctgcattgtctaacactaactgtgtggacttgtatttagTTGGTAGAAGGACCCCTGGACTGAGGCTTGATTCAACACCAATACCACCTAAGACGTCATCTTTGAAACGTCCAAGGTTGACGTCAAAGAGTACCACACC

Basic information

species Oryza sativa
transcript LOC_Os01g67250.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67250.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G093119_T01 (Zea mays), 3'ss of exon 8
gtatggatgaacctcctcaacaataattgtgcctggcttttgctgcattgtctaacactaactgtgtggacttgtatttagTTGGTAGAAGGACCCCTGGACTGAGGCTTGATTCAACACCAATACCACCTAAGACGTCATCTTTGAAACGTCCAAGGTTGACGTCAAAGAGTACCACACC
||||| |||| | | |    || |  |   |||||| |||   ||  ||  |  | |  |  ||  | ||| |    ||||| |||||||||||||||||| | |  ||||||||||||||| ||||||| | |   || ||| ||||||| |  ||||||   || ||||    ||||| 
gtatgtatga-catacaatgcatttctgtcgcctggattt-attgtgtttaccta-atcacttgacttgaccttgcattagTCGGTAGAAGGACCCCTGGATTCACACTTGATTCAACACCACTACCACCGAGGGAATCGTCTCTGAAACGCCGGAGGTTGGGCTCGAAGATGGGCACACT
















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|58610682|gb|CK038394.1|CK038394
EST:     AACCATTGATGGCATTCCTGATGATGATGATTTACTGGCGTCTATATTAG                         TTGGTAGAAGGACCCCTGGACTGAGGCTTGATTCAACACCAATACCACCTA
genomic: AACCATTGATGGTATTCCTGATGATGATGATTTACTGGCGTCTATATTAGgtatggatga ... ttgtatttagTTGGTAGAAGGACCCCTGGACTGAGGCTTGATTCAACACCAATACCACCTA
EST: gi|58656617|gb|CK045297.1|CK045297
EST:     AACCATTGAGGGTATTCCTGATGATGATGATTTACTGGCGTCTATATTAG                         TTGGTAGAAGGACCCNCTGGACTGAGGCTTGATTCAACACCAATACCACCT
genomic: AACCATTGATGGTATTCCTGATGATGATGATTTACTGGCGTCTATATTAGgtatggatga ... ttgtatttagTTGGTAGAAGGACCC-CTGGACTGAGGCTTGATTCAACACCAATACCACCT
EST: gi|58590475|gb|CF988783.1|CF988783
EST:     AACCATTGATGG-ATTCCTGATGATGATGATTTACTGGCGTCTATATTAG                         TTGGTAGAAGGACCCCTGGACTGAGGCTTGATTCAACACCAATACCACCTA
genomic: AACCATTGATGGTATTCCTGATGATGATGATTTACTGGCGTCTATATTAGgtatggatga ... ttgtatttagTTGGTAGAAGGACCCCTGGACTGAGGCTTGATTCAACACCAATACCACCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgcctggcttttgctgcattgtctaacactaactgtgtggacttgtatttagTTGGTAGAAGGACCCCTGGACTGAGGCTTGATTCAACACCAATACCACCTAAGACGTCATCTTTGAAACGTCCAAGGTTGACGTCAAAGAGTACCACACC
                             cactaac  putative branch site (score: 1)
                                             ttgtattta  TA-rich tract