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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctaacttggtacagcatcgtattcagagtcaaatcccttcctgactatgtcaactcaatttcaacagGACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATATGGCTGAACAACTTGCAATG

Basic information

species Oryza sativa
transcript LOC_Os02g57180.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57180.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G143651_T01 (Zea mays), 3'ss of exon 5
gtatgtctaacttggtaca-gcatcgtattcag---------agtcaaatcccttcctgactatgtcaactcaatttcaacagGACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATATGGCTGAACAACTTGCAATG
|| ||| || ||| |||||   || ||||||||           |||||||  ||  ||||| ||| ||||| |||||||||||||| |||||||||||||| |||||  | || || |||||||| || |||||| ||||||| |||||||  
gtgtgtttatcttagtacatatattgtattcagctttttcatgatcaaatctttttttgactttgttaactctatttcaacagGACGAGAGTATGAAACAAGGAACTACAGCTTCGAAGAAGTAAACCACCATATGCCTGAACAGCTTGCAACA
















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|58690755|gb|CK079442.1|CK079442
EST:     TTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAG                         GACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATA
genomic: TTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAGgtatgtctaa ... atttcaacagGACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATA
EST: gi|58597371|gb|CK007899.1|CK007899
EST:     TTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAG                         GACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATA
genomic: TTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAGgtatgtctaa ... atttcaacagGACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATA
EST: gi|29639479|gb|CB644488.1|CB644488
EST:     TTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAG                         GACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATA
genomic: TTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAGgtatgtctaa ... atttcaacagGACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcatcgtattcagagtcaaatcccttcctgactatgtcaactcaatttcaacagGACGCGAGTATGAAACAAGAAACTATGGATTTGACGAAGTAAATCATCATATGGCTGAACAACTTGCAATG
                          tcctgac  putative branch site (score: 2)
                                            aatttcaa  TA-rich tract