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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAGCTTTATGCAGAGTATGAGCCAAGGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAGgtcataaactcataattctcaaaagagaaaaaaaaagcattcattatcttgagaaggatgagtaatgaatgacatgtggttatttcag

Basic information

species Oryza sativa
transcript LOC_Os04g11880.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g11880.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G332615_T01 (Zea mays), 5'ss of exon 3
GTGGAGCTTTATGCAGAGTATGAGCCAAGGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAGgtcataaactcataattctcaaaagagaaaaaaaaagcattcattatcttgagaaggatgagtaatgaatgacatgtggttatttcag-------------------
||||||||||||||||| || ||| ||||||||||| |||||||||| |  |||||||||||||||||||||||||||||||||   ||      | ||||  |  | |  | |  |||   ||| ||   |||| | ||  | |    |   |   |     | |                   
GTGGAGCTTTATGCAGACTACGAGACAAGGATGCTACTACCCTTCCTTCTAACCAGTCAGCATTACAGGCTTGACAAGgtcatagtttc------cccaaagaatcacatcataaaattttctat-ttagcaaggttcagctaggcgctaggcggaatctaggcggtgacccattgcctagcgcc

upper sequence: LOC_Os04g11880.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G040247_T01 (Zea mays), 5'ss of exon 14
GTGGAGCTTTATGCAGAGTATGAGCCAAGGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAGgtcataaactcataattctcaaaagagaaaaaaaaagcattcattatcttgagaaggatgagtaatgaatgacatgtggttatt--tcag
|||||||||||||| || || ||| ||||||||||| |||||||||| || |||||||||||||||||||||||||||||||||   ||      | ||||  |  | |  | |  |||   ||| | |  ||  ||  |   |  || |  |||  || ||  ||||
GTGGAGCTTTATGCTGACTACGAGACAAGGATGCTACTACCCTTCCTTCGAACCAGTCAGCATTACAGGCTTGACAAGgtcatagtttc------cccaaagaatcacatcataaaattttctatttagttaatcataggc--ttgataatttgttattgttattcag
















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|66914272|gb|CX101120.1|CX101120
EST:     GGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAG                         GCATATGAAATCTTTGCACAAAAAGAGCTTGTACGGGAGCAAGTTTNTGTG
genomic: GGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAGgtcataaact ... gttatttcagGCATATGAAATCTTTGCACAAAAAGAGCTTGTACGGGAGCAAGTTTTTGTG
EST: gi|58692342|gb|CK081029.1|CK081029
EST:     GGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAG                         GCATATGAAATCTTTGCACAAAAAGAGCTTGTACGGGAGCAAGTTTTTGTG
genomic: GGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAGgtcataaact ... gttatttcagGCATATGAAATCTTTGCACAAAAAGAGCTTGTACGGGAGCAAGTTTTTGTG
EST: gi|218492660|gb|FG966164.1|FG966164
EST:     GGATGCTAATACCCTTCCTCCGTATCAGTCAGCATTACAGGCTTGACAAG                         GCATATGAAATCTTTGCACAAAAAGAGCTTGTACGGGAGCAAGTTTTTGTG
genomic: GGATGCTAATACCCTTCCTCCGTACCAGTCAGCATTACAGGCTTGACAAGgtcataaact ... gttatttcagGCATATGAAATCTTTGCACAAAAAGAGCTTGTACGGGAGCAAGTTTTTGTG