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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtttaccttagtcatgtattgaaaaatgtttctggactcaaaataaattattttattcaaccatcacaccaaaatttcagGTAATGGATATGCTTGGTCCCAGCCTCTGGGATGTGTGGAATTCAGTGGGACAGGC

Basic information

species Oryza sativa
transcript LOC_Os03g57940.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g57940.2 (Oryza sativa), 3'ss of exon 5
lower sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgcgtttacctta-gtcatgtattgaaaaatgt-ttctggactcaaaataaattattttattcaaccatcacaccaaaat----ttcagGTAATGGATATGCTTGGTCCCAGCCTCTGGGATGTGTGGAATTCAGTGGGACAGGC
  |  | ||  |||      |  |||  |||| |  | | ||     | |   ||||  | | |||  |   |   || ||    ||||||| ||||| ||||||||||| || ||||||||||| ||||||||   ||| ||  |
--gtatgtaatttacaatgagctttgttaaatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC
















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|58609402|gb|CK037435.1|CK037435
EST:     GCATACCATCGGTCCACTATAAGGGTCGTTTGGGAGACTACTACATTCTT                         GTAATGGATATGCTTGGTCCCAGCCTCTGGGATGTGTGGAATTCAGTGGGA
genomic: GCATACCATCAGTCCACTATAAGGGTCGTTTGGGAGACTACTACATTCTTgtgcgtttac ... aaaatttcagGTAATGGATATGCTTGGTCCCAGCCTCTGGGATGTGTGGAATTCAGTGGGA
EST: gi|29616079|gb|CB621091.1|CB621091
EST:     GCATACCATCGGNCCACTATAAGGGTCGTTTGGGAGACTACTACATTCTT                         GTAATGGATATGCTTGGTCCCAACCCTCTGGGATGTGTGGAATTCAGGGGG
genomic: GCATACCATCAGTCCACTATAAGGGTCGTTTGGGAGACTACTACATTCTTgtgcgtttac ... aaaatttcagGTAATGGATATGCTTGGTCCCAGCC-TCTGGGATGTGTGGAATTCAGTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttctggactcaaaataaattattttattcaaccatcacaccaaaatttcagGTAATGGATATGCTTGGTCCCAGCCTCTGGGATGTGTGGAATTCAGTGGGACAGGC
            tcaaaataaattattt  TA-rich tract