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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattcacacttgcttatcggacctgtgattgtaattatggatggttctatcttgttttcaagttggtttatagtttttaaatgactattgctctgttcagGTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTACTAACAAACGTCCTGCCAAAAATAATGGGAAACAATAAGTATCTTGGGC

Basic information

species Oryza sativa
transcript LOC_Os01g03760.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g03760.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G121683_T01 (Zea mays), 3'ss of exon 3
----aattcacacttgcttatcggacctgtgattgtaattatggatggttctatcttgttttcaagttggtttatagtttttaaatgactattgctctgttcagGTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTACTAACAAACGTCCTGCCAAAAATAATGGGAAACAATAAGTATCTTGGGC
    ||  | ||||   |||| || | | |  ||||||| ||| |||| ||  ||||  |||    |||| |  || ||||| | ||| | ||| |     ||||||||||| |||||||| |||||| ||||| ||||||| || || || |||||   ||| ||  ||||||| ||||||||||||||||| ||||| || |
gaccaacactcactgaattattggccttttatttgtaatgatgaatggctcggtctttcttt----ttggctggtacttttttactgattgttgatgatgacagGTTGCAATCTTTGTTGTTCTTGCCATGACTTTAAGAAGAAAGCCTGATGTACTGGTAAATGTTATGCCAAAGATAATGGGAAACAATAAATATCTGGGAC

upper sequence: LOC_Os01g03760.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G155709_T01 (Zea mays), 3'ss of exon 3
---aattcacacttgcttatcggacctgtgattgtaattatggatggttctatcttgttttcaagttggtttatagtttttaaatgactattgctctgttcagGTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTACTAACAAACGTCCTGCCAAAAATAATGGGAAACAATAAGTATCTTGGGC
    | |||| ||    | | || | |    ||||||| ||| |||| || || ||  |||    ||| |    | ||||| | ||  | ||| |     ||||||||||| |||||||| |||||| ||||| ||||||| || || || |||||   ||| ||  ||||||| ||||||||||||||||| |||||||| |
caacactcacgctgaactgttggcctttcatttgtaatgatgaatggctccatttttctttt---ttgctgctaattttttgactggttgttgatgacaacagGTTGCAATCTTTGTTGTTCTTGCCATGACTTTAAGAAGAAAGCCTGATGTACTTGTAAATGTTATGCCAAAGATAATGGGAAACAATAAATATCTTGGAC
















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|29645275|gb|CB650282.1|CB650282
EST:     TAGGCGCTAAGGGTTCAAAGAAGGCCGCACAGCAAACTCCAAGGGCCCAG                         GTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTA
genomic: TAGGCGCTAAGGGTTCAAAGAAGGCCGCACAGCAAACTCCAAGGGCCCAGgtagtccttg ... ctctgttcagGTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTA
EST: gi|29645235|gb|CB650242.1|CB650242
EST:     TAGGCGCTAAGGGTTCAAAGAAGGCCGCACAGCAAACTCCAAGGGCCCAG                         GTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTA
genomic: TAGGCGCTAAGGGTTCAAAGAAGGCCGCACAGCAAACTCCAAGGGCCCAGgtagtccttg ... ctctgttcagGTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatcttgttttcaagttggtttatagtttttaaatgactattgctctgttcagGTTGCAATATTTGTTGTGCTTGCCTTGACTGTAAGAAGGAAACCAGAGGTACTAACAAACGTCCTGCCAAAAATAATGGGAAACAATAAGTATCTTGGGC
                                             ctctgttc  CT-rich tract
                     tttatagtttttaaat  TA-rich tract