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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgttttgagttcaaataactgttttgtatttccaattcaactgacaatctgccatttttgtctgatatatttggccatcgttgccttttctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTTGTGACCATCGTTGCAGGAACTTTTCTCCTGCACAAGACTAGGGATATGG

Basic information

species Oryza sativa
transcript LOC_Os02g29510.4
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g29510.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G092991_T03 (Zea mays), 3'ss of exon 7
---agtgtt-ttgagttcaaataactgttttgtatttccaattcaactgacaatctgccatttttgtctgatatatttggccatcgttgccttttctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTTGTGACCATCGTTGCAGGAACTTTTCTCCTGCACAAGACTAGGGATATGG
   ||  ||     |||  | |   | ||   |   |  |      | | ||   |  | | |    ||||||  ||||    || | |  ||||| || | |||| |    ||| | || |||||| ||||| ||||||||| ||||||| ||||||||||| || || || |||||||| || |||||||||||||||||||
attagcattgccttgtttcatttgatcttccattgctatagggttccaggcagattatcctgtaaaactgata--tttgtttgtcatgg--ttttccatcctagGACTGGGCCTCGCAGACTGCAACGCAGATCGCAACACAGCTATGTGGGTTTGTGACCATTGTCGCGGGGACTTTTCTGCTTCACAAGACTAGGGATATGG

upper sequence: LOC_Os02g29510.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AT3G23870.1 (Arabidopsis thaliana), 3'ss of exon 7
agtgttttgagttcaaataactgttttgtatttccaattcaactgacaatctgccatttttgtctgatatatttggccatcgttgccttttctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTTGTGACCATCGTTGCAGGAACTTTTCTCCTGCACAAGACTAGGGATATGG
      |  |  ||||||  || |||  | ||||   ||   |    ||     || |||    | |||| |    ||   ||||  |     ||| |||||||     || | || || |  | ||||||||||| |||| |||||||||||||| ||  |  ||||||||||||| || |||||||| |  |||||||
-----gtcaaaatcaaatctctatttcctttttcttctttctcaagtaaataaacagttt--cttaatattt----cctctgttgtgtg----attacagGATTGGGCTTCTCAGAGTGGATTAAAGATTGCAACAGAGTTGTGTGGTTTTGTGACGATTTTATCAGGAACTTTTCTGCTTCACAAGACCAAAGATATGG
















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|88251212|gb|CI349640.1|CI349640
EST:     ACGTGATGTTCACCATACTTACTATTTTTGCTAACATGATTATGTACAAG                         GATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTT
genomic: ACGTGATGTTCACCATACTTACTATTTTTGCTAACATGATTATGTACAAGgtgatgtact ... tctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTT
EST: gi|88251269|gb|CI349697.1|CI349697
EST:     ACGTGATGTTCACCATACTTACTATTTTTGCTAACATGATTATGTACAAG                         GATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTT
genomic: ACGTGATGTTCACCATACTTACTATTTTTGCTAACATGATTATGTACAAGgtgatgtact ... tctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTT
EST: gi|29617921|gb|CB622933.1|CB622933
EST:     ACGTGATGTTCACCATACTTACTATTTTTGCTAACATGATTATGTACAAG                         GATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTT
genomic: ACGTGATGTTCACCATACTTACTATTTTTGCTAACATGATTATGTACAAGgtgatgtact ... tctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatctgccatttttgtctgatatatttggccatcgttgccttttctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTTGTGACCATCGTTGCAGGAACTTTTCTCCTGCACAAGACTAGGGATATGG
                                     ttgccttttctattcc  CT-rich tract
                   tgatatattt  TA-rich tract