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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGTTTGGAATTTGAGGAAATGTAGTGCTGCTGGCCTGGATGTCCTTTCTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgtacttttggttttgtatttattatggctagcatatttatcaagattgatattgtgatgcattagcccctgagctgctactcaaattctaggt...

Basic information

species Oryza sativa
transcript LOC_Os04g59494.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G312026_T01 (Zea mays), 5'ss of exon 12
AAATGTTTGGAATTTGAGGAAATGTAGTGCTGCTGGCCTGGATGTCCTTTCTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgtacttttggttttgtatttattatggctagcatatttatcaagattgatattgtgatgcattagcccctgagctgctactcaaattctaggt----
|||||| |||||  || |||| ||||||||||||||  ||||||| || |||||||| || |||||   ||| ||||| ||||||||||| |||||  |||| | |||||||| || |  |  | |  |  ||  |    | || |  || |    || |   |||   |   |      |   | |     |  | |      
AAATGTCTGGAACCTGCGGAAGTGTAGTGCTGCTGGGTTGGATGTTCTCTCTAATGTGTTTGGTGACAGCATCCTTCCAACTTTAATGCCATTGATTGAGgtgacttgtacttctgatagttaagtagtggtgctt--tttgttga--aaaacaagtactcaaatggcctgaactggagtcatttgcatggctcatggaaaaat

upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G376731_T01 (Zea mays), 5'ss of exon 12
AAATGTTTGGAATTTGAGGAAATGTAGTGCTGCTGGCCTGGATGTCCTTTCTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgtacttttggttttgtatttattatggctagcatatttatcaagattgatattgtgatgcattagcccctgagctgctactcaaattctag-gt-
|||||| |||||  || |||| ||||||||||||||  ||||||| || |||||||| || |||||   ||| ||||| ||||||||||| |||||  |||||| |||||| | ||||  | || | ||| |  ||    | || |  || |     | ||   || | | |  |||         ||||      |  || 
AAATGTCTGGAACCTGCGGAAGTGTAGTGCTGCTGGGTTGGATGTTCTCTCTAATGTGTTTGGTGACAGCATCCTTCCAACTTTAATGCCATTGATTGAGgtaacttgtacctatggtagtctagt-attgtttctt-tttgttgaaaaaaaacttaaatggcctgaactggagccttttgcatggctcatggaaaaacgtt

upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 12
lower sequence: PP1S276_77V6.1 (Physcomitrella patens), 5'ss of exon 12
AAATGTTTGGAATTTGAGGAAATGTAGTGCTGCTGGCCTGGATGTCCTTTCTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgtacttttggttttgtatttattatggctagcatatttatcaagattgatattgtgatgcattagcccctgagctgctactcaaattctaggt
||||  |||||||||| |||||||||||||||||||  | ||| |  | || |  || || || || || ||||| || | | | |||||| |  | ||||||  |  |  |  |  |  |  | ||        ||    ||||      ||||||||| | ||    | ||    || |  ||  |     | |||  
AAATTCTTGGAATTTGCGGAAATGTAGTGCTGCTGGATTAGATATATTATCAACAGTATTTGGGGACGATATTCTCCCAATTCTCATGCCTCTTGTGCAGgtacatccttgtcctactcgtagactt--------tactgaatttgc---aattgatattttcata---ttgcttacgaacacctgtt---gctgtag--

upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 12
lower sequence: PP1S15_486V6.1 (Physcomitrella patens), 5'ss of exon 13
AAATGTTTGGAATTTGAGGAAATGTAGTGCTGCTGGCCTGGATGTCCTTTCTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgtacttttggttttgtatttattatggctagcat--atttatcaagattgatattgtgatgcattagcccctgagctgctactcaaattctaggt
||||   ||||||||| ||||||||||||||||||| || ||| |  | || |  || || || ||||| ||||| || | | |  ||||  |  | ||||||      |  |||    |   |||| |||  ||    |   |    |||||  || | || |  |   || || | ||||  |||  |     | |||  
AAATTCGTGGAATTTGCGGAAATGTAGTGCTGCTGGACTAGATATATTATCAACAGTATTTGGGGATGAAATTCTCCCAATTCTTCTGCCCCTTGTGCAGgta-----catcttta---tccaatttcttacagcctttactgaaccgtcaag--tggtgtt-tactaggtt-gctcatgagtagctgtt---gctgtag--

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|58612862|gb|CK040574.1|CK040574
EST:     CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
EST: gi|29626307|gb|CB631318.1|CB631318
EST:     CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
EST: gi|33797567|gb|CF324643.1|CF324643
EST:     CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
EST: gi|58672477|gb|CK061163.1|CK061163
EST:     CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
EST: gi|33678128|gb|CF306367.1|CF306367
EST:     CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
EST: gi|58662574|gb|CK051260.1|CK051260
EST:     CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
EST: gi|58656826|gb|CK045506.1|CK045506
EST:     TAATGTTTTCGGTGATGACATTCTTGCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: TAATGTTTTCGGTGATGACATTCTT-CCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
EST: gi|58663523|gb|CK052209.1|CK052209
EST:     CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAG                         CAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT
genomic: CTAATGTTTTCGGTGATGACATTCTTCCTACTTTAATGCCTTTGATACAGgtaagttgta ... tattttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCT