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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTGTGCGGAATATACCGCCTGATCCTGATGAATCAATTGGTGAGCTTGTGGAACATTTCTTCCTTGTAAACCATCCTGACCATTATCTTACGCACCAGgtaatatttatattttacagtctggtatttatgcttcactggatctttctgtctggtcagttcaaagttcatagcgaagtcatgtgaatagttatatgcc...

Basic information

species Oryza sativa
transcript LOC_Os01g35050.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g35050.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G021194_T01 (Zea mays), 5'ss of exon 5
CCTTGTGCGGAATATACCGCCTGATCCTGATGAATCAATTGGTGAGCTTGTGGAACATTTCTTCCTTGTAAACCATCCTGACCATTATCTTACGCACCAGgtaatatttatattttaca-gtctggtatttatgcttcactggatctttctgtctggtcagttcaaagttcatagcgaagtcatgtgaatagttatatgcc--
||||||||||||||||||||||||||| |||||||||||| |||||||||||||||||||||| ||||| || |||||||  || ||||| || || ||||||||| | || | | |||    |  |   ||| | |     ||||  |   | |  ||   |   |||| ||       |  |  |    ||  ||||    
CCTTGTGCGGAATATACCGCCTGATCCAGATGAATCAATTAGTGAGCTTGTGGAACATTTCTTTCTTGTGAATCATCCTGGTCACTATCTGACACATCAGgtaataataatttataacataattcatgaatattcatgttatgatcccttattttattc---taggagtttatctatggattctccgccgtgtagtatggttt

upper sequence: LOC_Os01g35050.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA02G43910.2 (Glycine max), 5'ss of exon 5
CCTTGTGCGGAATATACCGCCTGATCCTGATGAATCAATTGGTGAGCTTGTGGAACATTTCTTCCTTGTAAACCATCCTGACCATTATCTTACGCACCAGgtaatatttatattttacagt--ctggtatttatgcttcactggatctttctgtctggtcagttcaaagttcatagcgaagtcatgtgaatagttatatgcc---
 |||||  | ||| |||| |||||||||||||||||  |  ||||||| ||||||||||||||  | || || ||||| || || ||||| || || |||||     | ||  |||   ||  |  |||   |||| | | |   | | ||||| |      ||  ||  |  |   | | |  || |  ||   | ||      
ACTTGTTAGAAATGTACCACCTGATCCTGATGAATCGGTCAGTGAGCTAGTGGAACATTTCTTTTTGGTCAATCATCCAGATCACTATCTCACTCAGCAGgt----ctgatcctttctggttacaagtacacatgcctaattctgtttctctgtttcagagcttgtaatatggttttgtaatt-tgagtgtatcaaaatattaat

upper sequence: LOC_Os01g35050.3 (Oryza sativa), 5'ss of exon 5
lower sequence: AT1G11960.1 (Arabidopsis thaliana), 5'ss of exon 5
CCTTGTGCGGAATATACCGCCTGATCCTGATGAATCAATTGGTGAGCTTGTGGAACATTTCTTCCTTGTAAACCATCCTGACCATTATCTTACGCACCAGgtaatatttatattttacagtctggtatttatgcttcactggatctttctgtctggtcagttcaaagttcatagcgaagtcatgtgaatagttatatgcc
  | ||  ||||  ||||  | || || ||||| || ||| ||||   ||||||||||||||| || || |||||||| ||||||||||||||||| ||||| |||     |||  |  |  | | |   ||   ||      | ||||     | |  ||| ||| |    |      | ||    |            
TTTGGTTAGGAACGTACCAGCGGACCCAGATGAGTCCATTAGTGACAGTGTGGAACATTTCTTTCTAGTTAACCATCCGGACCATTATCTTACGCATCAGgttataagctcattc-attgcttagaaagaatcagtc------tttttcctcgggttttgtttaaattatggaagttgattatacccag-----------

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|58609230|gb|CK037263.1|CK037263
EST:     TGGAACATTTCTTCCTTGTAAACCATCCTGACCATTATCTTACGCACCAG                         GTTGTCTATAATGCAAATAAGCTTGATAAGATGGTCAAAGAGAA
genomic: TGGAACATTTCTTCCTTGTAAACCATCCTGACCATTATCTTACGCACCAGgtaatattta ... actggtatagGTTGTCTATAATGCAAATAAGCTTGATAAGATGGTCAAAGAGAA