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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctatctgttgctcacgtttttgctctttggtatatataatcaagttcactagctaatacttttaccattacatatgccttttgctttgcatatctccagGTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAGGTGTTTATCCTGATGTGTTCATGACAAACTTGTATTACGGAGGCACAAGAATTGCTG

Basic information

species Oryza sativa
transcript LOC_Os10g36780.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g36780.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G082502_T02 (Zea mays), 3'ss of exon 8
-tctatctgttgctcacgtttttgctctttggtatatataatca-agttcactagctaatacttttaccattacatatgccttttgctttgcatatctccagGTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAGGTGTTTATCCTGATGTGTTCATGACAAACTTGTATTACGGAGGCACAAGAATTGCTG
    || || |   ||   |||   |||     | |  || ||  | | || |   |  ||  | ||    || |||| ||||   | ||    |  ||||||||||||||||||||||||||| |||||||||| ||||| |||||||| |||||||||||||| ||||||||||| |||||||||||||| ||||
gaacatatgatcaacaacatttgtatctccaaaaaaagtactctcaatgcagtg--tgctatatatatatatatatataccttacacattttgaacttccagGTACCATTTGGACCTATGCAGACATGTCTTTGGGGAAGGCGTTTATCCCGATGTGTTCATGACGAACTTGTATTATGGAGGCACAAGAATCGCTG
















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|33793324|gb|CF322543.1|CF322543
EST:     CAAGTGGCACCCAAAAACGATAGCATTCGCTCTACAGAGATCAATACAGG                         GTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAAGGTGTTTATCCTG
genomic: CAAGTGGCACCCAAAAACGATAGCATTCGCTCTACAGAGATCAATACAGGgtaatgtcct ... atatctccagGTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAA-GGTGTTTATCCTG
EST: gi|88198073|gb|CI197923.1|CI197923
EST:     ACCCAAAAACGATAGCATTCGCTCTACAGAGATCAATACAGG                         GTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAGGTGTTTATCCTGA
genomic: ACCCAAAAACGATAGCATTCGCTCTACAGAGATCAATACAGGgtaatgtcct ... atatctccagGTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAGGTGTTTATCCTGA
EST: gi|58689723|gb|CK078410.1|CK078410
EST:     CAAGTGGCACCCAAAAACGATAGCATTCGCTCTACAGAGATCAATACAGG                         GTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAGGTGTTTATCCTGA
genomic: CAAGTGGCACCCAAAAACGATAGCATTCGCTCTACAGAGATCAATACAGGgtaatgtcct ... atatctccagGTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAGGTGTTTATCCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcactagctaatacttttaccattacatatgccttttgctttgcatatctccagGTACCATTTGGACCTATGCAGAAATGTCTTTGGTGAAGGTGTTTATCCTGATGTGTTCATGACAAACTTGTATTACGGAGGCACAAGAATTGCTG
      agctaat  putative branch site (score: 3)
                                              tatctcc  putative PPT
         taatactttta  TA-rich tract