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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttaataaaaccaaaactcttacttcgcttcttgttgaggcccaacttttctgcaaaattgctaacaagttccatgcatttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGACCGGTCAGCCTCTTGTCCAATGTACTTCTCACATGTGCCCGATCAGAATC

Basic information

species Oryza sativa
transcript LOC_Os05g32110.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g32110.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G071970_T01 (Zea mays), 3'ss of exon 4
gtgagttaataaaaccaaaactcttacttcgcttcttgttgaggcccaacttttc---tgcaaaattgctaacaagttccatgcatttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGACCGGTCAGCCTCTTGTCCAATGTACTTCTCACATGTGCCCGATCAGAATC
||||||| || |        |||||| |||   || | ||| ||  | | ||||    |||||  || ||||  | ||   |||||||   ||| ||| |||||||| || ||||| | || |||||||| ||||| |||||||| || ||||||||||| ||||| ||||||||||||||||| || ||||||
gtgagtttatcag-------ctcttaattcatgtcatattggggttctattttttatttgcaatttttctaatgaatttattgcattttt-cagCGAGGATTCACCTAATCTACAAGCCGCAATTGATGGTCCTGGTAAATGGACTGGCCAGCCTCTTGTACAATGCACTTCTCACATGTGCCCAATAAGAATC

upper sequence: LOC_Os05g32110.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 4
gtgagttaataaaaccaaaactcttacttcgcttcttgttgaggcccaacttttc-tgcaaaattgctaa-caagttccatgcatttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGACCGGTCAGCCTCTTGTCCAATGTACTTCTCACATGTGCCCGATCAGAATC
||||||| ||    |     |||||| |||   || | ||  ||  | | ||||  |  ||| ||  |||   | ||| ||    ||   ||||||| |||||||| || ||||| |||| ||||||||||||||||||||||| |||||||| ||||| ||||| ||||| |||||||||||||| ||||||
gtgagttgatctgccttttgctcttaattcatgtcctattagggttctattttttatctaaagtttttaaatgaattctattgcattttgcagTGAGGATTCACCTAATCTACAAGCTGCAATTGATGGCCCTGGCAAATGGACTGGTCAGCCCCTTGTACAATGCACTTCCCACATGTGCCCGATAAGAATC
















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|29629256|gb|CB634267.1|CB634267
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|58662260|gb|CK050940.1|CK050940
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|66918925|gb|CX105773.1|CX105773
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGCAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|66947309|gb|AU312153.1|AU312153
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|58686271|gb|CK074958.1|CK074958
EST:     TGCTCTTGTGGCTGCCAAAAGAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|58654342|gb|CK043022.1|CK043022
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATCTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|24208701|gb|AU225728.1|AU225728
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|33676440|gb|CF304679.1|CF304679
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|3061251|gb|C91883.1|C91883
EST:     GGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: GGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|24208702|gb|AU225729.1|AU225729
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|58663357|gb|CK052043.1|CK052043
EST:     CAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: CAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
EST: gi|29684532|gb|CB680807.1|CB680807
EST:     TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAA                         TGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC
genomic: TGCTCTTGTGGCTGCCAAAACAATGGGACAAGTCCTGGAAGCTGTGTAAAgtgagttaat ... atttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgaggcccaacttttctgcaaaattgctaacaagttccatgcatttccacagTGAGAATTCACCTTATTTACAATCTGCCATTGATGGCCCTGGCAAATGGACCGGTCAGCCTCTTGTCCAATGTACTTCTCACATGTGCCCGATCAGAATC
                           tgctaac  putative branch site (score: 1)
                                            catttcc  putative PPT
                      aaaatt  TA-rich tract