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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gattacttttaagggtcaaaagagcaattgtccctttaaattaattggctggttacacaaatttgtacttatcctatcatcttctatttcattttttcagTCACGATCTATCAGGGAATTCGACCGTCATGCCACTTGTGTGGTTGCAAAATATGAG

Basic information

species Oryza sativa
transcript LOC_Os05g35730.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g35730.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G011169_T01 (Zea mays), 3'ss of exon 9
---------------------------------------------------------------------------------gattacttttaagggtcaaaagagcaattgtccc---tttaaattaattggctggttacacaaatttgtacttatcctatcatcttctatttcattttttcagTCACGATCTATCAGGGAATTCGACCGTCATGCCACTTGTGTGGTTGCAAAATATGAG
                                                                                  |    | |      |  ||  |||| ||   |    ||| ||| |||| || ||||| |  |     || |   | || |  |||   |||  |||  ||||||||  |||||| ||||||||||||| |||||||||||||| ||||||||||| |||
gtaagatagcattgttggtctatttttaaatagtcatgcaatccctatcatgtttatgtgttactggtttgattaaaaaacaacagatgtagtccatttaataagcagtttgactatatttcaatgaattagccggttatatga---catattgtgcttaccccctt---ttttctttcatcagTCACACTCTATCCGGGAATTCGACCGCCATGCCACTTGTGTTGTTGCAAAATACGAG
















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|89180189|gb|CI044468.1|CI044468
EST:     ACACCAACCCGTCTTGGCAAGACTTGCTAACTGGGAAGATATTAGAAAG                         TCACGATCTATCAGGGAATTCGACCGTCATGCCACTTGTGTGGTTGCAAAA
genomic: ACACCAACCCGTCTTGGCAAGACTTGCTAACTGGGAAGATATTAGAAAGgtacattgac ... attttttcagTCACGATCTATCAGGGAATTCGACCGTCATGCCACTTGTGTGGTTGCAAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggctggttacacaaatttgtacttatcctatcatcttctatttcattttttcagTCACGATCTATCAGGGAATTCGACCGTCATGCCACTTGTGTGGTTGCAAAATATGAG
                          tcctatcatcttctat  CT-rich tract
                                    ttctatttcatttttt  TA-rich tract