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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgatttatccattcagctattttcatttttcatattccttttggtgtattgctttacttccttcagtgctaaaagtaacaattgtgcttcttgtgcagGTGGAGATATGGGCTGGTAATAAAATAAATCGAGAAGATCGAACATTTATAGGAAAATGGGATGTACACGACATGATGTTGTCATCTCCACATCTTTCTG

Basic information

species Oryza sativa
transcript LOC_Os01g25330.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g25330.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G133937_T01 (Zea mays), 3'ss of exon 8
tttg-atttatccattcagctattttcatttttcatattccttttggtgtatt-gctttacttccttcagtgctaaaagtaacaattgtgcttcttgtgcagGTGGAGATATGGGCTGGTAATAAAATAAATCGAGAAGATCGAACATTTATAGGAAAATGGGATGTACACGACATGATGTTGTCATCTCCACATCTTTCTG
|||| || || | |   |||   ||    | ||   |||  |||   |   || | |||| ||  | |  |  |||   | | |||  |||| ||||||||||| |||||||||||  ||||||||||| | ||||||||||| |||||||||||||| ||||||||||| || || || |  ||||||||||| |||  ||
tttgtatataacaagctagcctgttgagctgttttcatttttttccattcctttgatttattttttcc--ttttaatgttcataatcatgctgcttgtgcagGTAGAGATATGGGCGAGTAATAAAATACACCGAGAAGATCGTACATTTATAGGAAAGTGGGATGTACAGGATATAATATCTTCATCTCCACAGCTTCGTG
















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|58657073|gb|CK045753.1|CK045753
EST:     CGGCAATAATTGTTGGTTCCTGTGGATACTCAACATCTGACTGCCCAATT                         GTGGAGATATGGGCTGGTAATAAAATAAATCGAGAAGATCGAACATTTATA
genomic: CTGCAATAATTGTTGGTTCCTGTGGATACTCAACATCTGACTGCCCAATTgtaagatggc ... tcttgtgcagGTGGAGATATGGGCTGGTAATAAAATAAATCGAGAAGATCGAACATTTATA
EST: gi|58611780|gb|CK039492.1|CK039492
EST:     CTGCAATAATTGTTGGTTCCTGTGGATACTCAAGATCTGACTGGCCAATT                         GTGGAGATATGGGCTGGTAA
genomic: CTGCAATAATTGTTGGTTCCTGTGGATACTCAACATCTGACTGCCCAATTgtaagatggc ... tcttgtgcagGTGGAGATATGGGCTGGTAA
EST: gi|13420885|gb|AU174975.1|AU174975
EST:     CTGCAATAATTGTTGGTTCCTGTGGATACTCAACATCTGACTGCCCAATT                         NTNGAGATATGGGCTGGTAATAAAATAAATCGAGAAGATCGAACATTTATA
genomic: CTGCAATAATTGTTGGTTCCTGTGGATACTCAACATCTGACTGCCCAATTgtaagatggc ... tcttgtgcagGTGGAGATATGGGCTGGTAATAAAATAAATCGAGAAGATCGAACATTTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtattgctttacttccttcagtgctaaaagtaacaattgtgcttcttgtgcagGTGGAGATATGGGCTGGTAATAAAATAAATCGAGAAGATCGAACATTTATAGGAAAATGGGATGTACACGACATGATGTTGTCATCTCCACATCTTTCTG
                             aagtaac  putative branch site (score: 2)
                                         tgcttctt  putative PPT
                          taaaagtaacaatt  TA-rich tract