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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttgttgctgttggtactttcagaaccatgcttgtatgacaaacaaaaatatcaacttatgcaattctcttcttgtactttctcttcatatcttaacagGATCAGTTCCGCGATTATATGCATCTTGAAGCTGCACGGCGAGACTTAAGATTAATAATTGAGAACAAACAGCGCATTGTTCTTGCACATGCACCTTCAG

Basic information

species Oryza sativa
transcript LOC_Os04g56480.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g56480.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G044011_T02 (Zea mays), 3'ss of exon 9
----atttgttgctgt--tggtactttcagaacc----atgcttgtatgacaaacaaaaatatcaacttatgcaattctcttcttgtactttctcttcatatcttaacagGATCAGTTCCGCGATTATATGCATCTTGAAGCTGCACGGCGAGACTTAAGATTAATAATTGAGAACAAACAGCGCATTGTTCTTGCACATGCACCTTCAG
     ||  | | |     | | ||| || ||      ||||| ||||   |   |||||||||||| | ||   ||   |||           |||  || | |||||||| ||||||||||||||| ||  ||||||||||||||||||||| |||||| |||||||||||||||| || ||| ||||||| || |||||| | ||||
cgaagttgatagttacaccgttgcttgcataaagttgaatgctcgtatactacgaaaaaatatcaacctgtgttgtttggttcc----------ctttttaccataacagGACCAGTTCCGCGATTATTTGTTTCTTGAAGCTGCACGGCGAGATTTAAGAGTAATAATTGAGAACAAGCAACGCCTTGTTCTGGCGCATGCAACATCAG
















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|87006648|gb|CI295031.1|CI295031
EST:     ATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAG                         GATCAGTTCCGCGATTATATGCATCTTGAAGCTGCACGGCGAGACTTAAGA
genomic: ATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAGgtaatcctca ... atcttaacagGATCAGTTCCGCGATTATATGCATCTTGAAGCTGCACGGCGAGACTTAAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaatatcaacttatgcaattctcttcttgtactttctcttcatatcttaacagGATCAGTTCCGCGATTATATGCATCTTGAAGCTGCACGGCGAGACTTAAGATTAATAATTGAGAACAAACAGCGCATTGTTCTTGCACATGCACCTTCAG
                    ttctcttcttgtactt  CT-rich tract
                                           atatcttaa  TA-rich tract