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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAACTACACCAAGCTCGACAACGTCGGCCCCGAGGACTTCTTCTGCCGCTTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttgaatgctgattgttcatttcccgttccccagtgcaatgttggatttgttcaatttccatgggatgttagaatgttgattgctgattcgtctctgcttgtgttttctttttcgtttttctgaag

Basic information

species Oryza sativa
transcript LOC_Os08g32620.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G871463_T02 (Zea mays), 5'ss of exon 2
AGAACTACACCAAGCTCGACAACGTCGGCCCCGAGGACTTCTTCTGCCGCTTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttgaatgctgattgttcatttcccgttccccagtgcaatgt-tggatttgttcaatttccatgggatg-ttagaatgttgattgctgattcgtctctgcttgtgttttctttttcgtttttctgaag
||||||| |||| ||| ||||| || || || ||||||||||||||||| |||||||||||||| ||||||||  | |||||||| |||||||| || |||||||        |      | |||| |  | |  ||  |  | |||       | || |  || | || |||| || |  |||  |||     |                                      
AGAACTATACCAGGCTTGACAATGTTGGGCCTGAGGACTTCTTCTGCCGATTCGAGTACAAGGCGGCCACCGGTTCGTTCACCCCTGACCGCGTGGCAGTgtatgaagctcctcaacccttccattgctggctgtcccttttactgtgcatgcatttttagcttgcttgtgatgattgggttgtctattttctctcaag----------------------------------

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G119357_T01 (Zea mays), 5'ss of exon 2
AGAACTACACCAAGCTCGACAACGTCGGCCCCGAGGACTTCTTCTGCCGCTTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttgaatgctgattgttcatttcccgttccccagtgcaatgttggatttgttcaatttccatgggatgttagaatgttgattgctgattcgtctctgcttgtgttttctttttcgtttttctgaag
|||||||||||||||| || || ||||| || ||||||||||||| ||| || ||||||||||| ||||||||  | |||||||| |||||||| || ||||| |       |||  |   || ||||         | ||     ||   ||| |||  | | |||| | | | ||  || |  | | | ||| |  | ||  | | |||||| |   |           
AGAACTACACCAAGCTTGATAATGTCGGGCCTGAGGACTTCTTCTCCCGATTTGAGTACAAGGCGGCCACCGGTTCGTTCACCCCTGACCGCGTGGCAGTgtacg-----gagctcctcaatcctttc---------attgttgactt---tttcttctctgtgcatgcgttttgagcctgcttgt-gataatttgggtgtgtgtat-ttttctctaaag-----------

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 2
AGAACTACACCAAGCTCGACAACGTCGGCCCCGAGGACTTCTTCTGCCGCTTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttgaatgctgattgttcatttcccgttccccagtgcaatgttggatttgttcaatttccatgggatgttagaatgttgattgctgattcgtctctgcttgtgttttctttttcgtttttctgaag
|||||||||||||||| || || || ||  | ||||| | ||  ||  | ||||||||||||||||||||||| || |||||||| ||||| || || ||||  | ||                || ||  ||    |     |||||   ||   |||| ||     | | ||| || |     ||| |  | | | |  |  | |  |   ||||| | |         
AGAACTACACCAAGCTTGAGAATGTGGGTGCTGAGGATTACTATTGTAGATTCGAGTACAAGGCCGCCACCGGGGCTTTCACCCCTGACCGTGTTGCTGTgtgagttt----------------ttccctttttgaaaaaaatatgtttt-ttccctcaaattatccagaaagttcgatt-----ttggtagtgcctatgagaatttaatacattttttggt---------

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ17782 (Selaginella moellendorffii), 5'ss of exon 2
AGAACTACACCAAGCTCGACAACGTCGGCCCCGAGGACTTCTTCTGCCGCTTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgta--tgcttgaatgctgattgttcatttcccgttccccagtgcaatgttggatttgt-tcaa-----------tttccatgggatgttagaatgttgattg--ctgattcgtctctgcttgtgttttc-tttttcgtttttctgaag------------------------------
||| |||||||||| | || | ||| ||   ||| || ||||||||||| |||||||||||||| ||||| |||| ||| || ||||| || ||  | |||||  ||||      ||   | |   | ||  |   | |  ||    ||||  ||  | ||||           ||  | |||  |  | |  |  | || |  ||  | |   |||  |||||||     || || || ||||   |                              
AGAGCTACACCAAGTTGGAGAGCGTGGGAAGCGATGATTTCTTCTGCCGATTCGAGTACAAGGCGGCCACAGGCGGCTTTACTCCCGATCGTGTTCCAGTgtaagtgctctctctctccctctgtctctctggcgtctcgttgactagttgtgttcttatcaagcttctctttcttctcttggtctcgttgtgttcttatcgaacttctcctgttctcgttgtgttcgaacttctctttcttctcttgtgttcttaccaagcgctttattacgtgaag

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ26805 (Selaginella moellendorffii), 5'ss of exon 2
AGAACTACACCAAGCTCGACAACGTCGGCCCCGAGGACTTCTTCTGCCGCTTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttgaatgctgattgttcatttcccgttccccagtgcaatgttggatttgttcaatttccatgggatgttagaatgttgattgctgattcgtctctgcttgtgttttctttttcgtttttctgaag
|||||||||||||||| || |  || |   ||||||||| ||| ||||| |||||||||||||| ||||| || | |||||| || || || ||||| ||||| | ||||   |  |    ||| ||    ||| | | |   ||| |   ||| ||    ||  |                                                                 
AGAACTACACCAAGCTGGAGAGTGTGGCATCCGAGGACTACTTTTGCCGGTTCGAGTACAAGGCGGCCACGGGAGGCTTCACTCCGGATCGAGTCGCAGTgtaagattga---caaagctctcactttggattctcta-tcttatgctctctttttttgggtttgaaacag------------------------------------------------------------

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ05369 (Selaginella moellendorffii), 5'ss of exon 2
AGAACTACACCAAGCTCGACAACGTCGGCCCCGAGGACTTCTTCTGCCGCTTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttgaatgctgattgttcatttcccgttccccagtgcaatgttggatttgttcaatttccatgggatgttagaatgttgattgctgattcgtctctgcttgtgttttctttttcgtttttctgaag
|||||||||||||||| || |  || |   ||||||||| ||| ||||| |||||||||||||| ||||| || | |||||| || || || ||||| ||||| | ||||   |  |    ||| ||    ||| | | |   ||| |   ||| ||    ||    |  |                                                            
AGAACTACACCAAGCTGGAGAGTGTGGCATCCGAGGACTACTTTTGCCGGTTCGAGTACAAGGCGGCCACGGGAGGCTTCACTCCGGATCGAGTCGCAGTgtaagattga---caaagctctcactttggattctcta-tcttatgctctctttttttgggtttgcggaaacag---------------------------------------------------------

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|33801423|gb|CF326583.1|CF326583
EST:     TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGT                         ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
genomic: TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttga ... ttttctgaagATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
EST: gi|88478431|gb|CI415702.1|CI415702
EST:     TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGT                         ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
genomic: TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttga ... ttttctgaagATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
EST: gi|88485934|gb|CI423205.1|CI423205
EST:     TACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGT                         ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
genomic: TACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttga ... ttttctgaagATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
EST: gi|88845520|gb|CI084445.1|CI084445
EST:     TTCGAGTACAAGGCCGCNACCGGCGCCTTCACCCCCGACCGCGTCGCCGT                         ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
genomic: TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttga ... ttttctgaagATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
EST: gi|88508474|gb|CI435980.1|CI435980
EST:     TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGT                         ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
genomic: TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttga ... ttttctgaagATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
EST: gi|86508991|gb|CI151624.1|CI151624
EST:     TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGT                         ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG
genomic: TTCGAGTACAAGGCCGCCACCGGCGCCTTCACCCCCGACCGCGTCGCCGTgtatgcttga ... ttttctgaagATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTG