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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGCGGAGCATCAGGATTGTCATATTCACTTCTAAGCTCAATCTGCTCTTGCCGTTTGGGCCTGCGTCGATCATTCTACACTATACTACCAGCAGACATgtaagtcctgttcacagcaactgaactctattcgaccgcattttgtttatatttatcattgttcgtaggctagaaaccagagtaccctatcgagatgaac...

Basic information

species Oryza sativa
transcript LOC_Os04g55940.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g55940.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G143356_T02 (Zea mays), 5'ss of exon 3
GCTGCGGAGCATCAGGATTGTCATATTCACTTCTAAGCTCAATCTGCTCTTGCCGTTTGGGCCTGCGTCGATCATTCTACACTATACTACCAGCAGACATgtaagtcctgttcacagcaact-gaactctatt--cgaccgcattttgtttatatttatcattgttcgtaggctagaaaccagagtaccctatcgagatgaac
|||  ||||||||||||| ||||| || ||||| ||||||||  ||||| ||||||| || ||||| || |||||||| ||||  || || || |||||||||||| ||| |||  | | || || ||||  |   |   |  |||   |  | | | ||| |  |  |||      |     | || | | |  | | |   
GCTCAGGAGCATCAGGATCGTCATTTTTACTTCCAAGCTCAACTTGCTCATGCCGTTCGGACCTGCCTCCATCATTCTCCACTTCACGACTAGGAGACATgtaagtgctgatcatgggaccttgagctctgctgctgtgtgtctttcactcttttgtttcagttataatagataccgagtttaaatagcatgtatacaag---

upper sequence: LOC_Os04g55940.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G040017_T02 (Zea mays), 5'ss of exon 2
GCTGCGGAGCATCAGGATTGTCATATTCACTTCTAAGCTCAATCTGCTCTTGCCGTTTGGGCCTGCGTCGATCATTCTACACTATACTACCAGCAGACATgtaagtcctgttcacagcaactgaactctatt--cgacc-gcattttgtttatatttatcattgttcgtaggctagaaaccagagtaccctatcgagatgaac
|||   |||||||||||| ||||| |||||||| ||||||||  ||||| ||||||| ||||||||||| |||||||| ||||  || || || || ||||||||| ||| |||  | |  ||||||||  |  ||||| ||  |    ||  |||  ||| ||   |   |   |  |  || |         | |      
GCTCAAGAGCATCAGGATCGTCATTTTCACTTCCAAGCTCAACTTGCTCATGCCGTTCGGGCCTGCGTCCATCATTCTCCACTTCACGACTAGGAGGCATgtaagtgctgatcatgggacttgaactctgctgccgacctgccgtgctattggattggtcagtggatggttgtagggcagtagggatttactgtgtgcca---
















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|88763180|gb|CI772736.1|CI772736
EST:     TGCCGTTTGGGCCTGCGTCGATCATTCTACACTATACTACCAGCAGACAT                         GGATTGGTCTTCCTATTCAGCATGCTAGGAATAACACCTTTAGCTGAGCGC
genomic: TGCCGTTTGGGCCTGCGTCGATCATTCTACACTATACTACCAGCAGACATgtaagtcctg ... aaaattgcagGGATTGGTCTTCCTATTCAGCATGCTAGGAATAACACCTTTAGCTGAGCGC