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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attatcatgcattgtgcaggccccatagcaggcatacctgtaaattggtgtttactgcaaggatttctgtccttttaactgcttgtttacttttgtttagTCGTAAATGGGTGGGGGGAGAAGTTCTCAATGCTTTAGCATATGATGTGCCAATTCCTGGGTACAAGACAAAAAATGCAATCAGTCTTCGTCTTTGGGAC

Basic information

species Oryza sativa
transcript LOC_Os01g63270.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G085577_T01 (Zea mays), 3'ss of exon 4
attatcatgcattgtgcaggccccatagcaggcatacctgtaaattggtgtttactgcaaggatttc---tgtccttttaactgcttgtttacttttgtt------tagTCGTAAATGGGTGGGGGGAGAAGTTCTCAATGCTTTAGCATATGATGTGCCAATTCCTGGGTACAAGACAAAAAATGCAATCAGTCTTCGTCTTTGGGAC
           |     |       |   |   ||  |     || |||| ||| |  | || |||    |  |   |||  || ||| ||  |||| |       |||||| |||| ||| || |||||||| || || ||||||||||||||||||||||| ||||| |||||||||||||||||||||||||||||||||||||| 
---------tctccctgactttttttgttatttatttcgtgttatgggtggttatttgagggctttgatgtaactcgttatatgattgcttttttttatcatgtgatagTCGGAAATTGGTCGGAGGAGAAGTCCTGAAGGCTTTAGCATATGATGTGCCAATCCCTGGATACAAGACAAAAAATGCAATCAGTCTTCGTCTTTGGGAA
















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|29625767|gb|CB630778.1|CB630778
EST:     GTATACCCAATCAGATTTTTTGGCCACGTTGAGATTTTGCCAGATGGATC                         TCGTAAATGGGTNNNNNNNAGAAGTTCTCAGTGCTTTAGCATATGATGTGC
genomic: GTATACCCAATCAGATTTTTTGGCCACGTTGAGATTTTGCCAGATGGATCgtaagtacaa ... ttttgtttagTCGTAAATGGGTGGGGGG-AGAAGTTCTCAATGCTTTAGCATATGATGTGC
EST: gi|29625892|gb|CB630903.1|CB630903
EST:     GTATACCCAATCAGATTTTTTGGCCACGTTGAGATTTTGCCAGATGGATC                         TCGTAAATGGGTGGGGGGAGAAGTTCTCAGTGCTTTAGCATATGATGTGCC
genomic: GTATACCCAATCAGATTTTTTGGCCACGTTGAGATTTTGCCAGATGGATCgtaagtacaa ... ttttgtttagTCGTAAATGGGTGGGGGGAGAAGTTCTCAATGCTTTAGCATATGATGTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtttactgcaaggatttctgtccttttaactgcttgtttacttttgtttagTCGTAAATGGGTGGGGGGAGAAGTTCTCAATGCTTTAGCATATGATGTGCCAATTCCTGGGTACAAGACAAAAAATGCAATCAGTCTTCGTCTTTGGGAC
                           ttttaac  putative branch site (score: 2)
                                        tttactttt  putative PPT
                                        tttacttttgttta  TA-rich tract