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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttatttttccagttttctatgttcttttacactctccagttttcaatgttgaaatagcatctaatcacttcttgacttctattttatttttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGACTCCCTCTTAAATGGGCTCTCATCCATTTCAGTTTCTTCACCATTGCGC

Basic information

species Oryza sativa
transcript LOC_Os02g32610.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g32610.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 2
--------tttatttttccagttttctatgttcttttacactctccagttttcaatgttgaaata-gcatctaatcacttcttgacttctattttatttttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGACTCCCTCTTAAATGGGCTCTCATCCATTTCAGTTTCTTCACCATTGCGC
          ||||||  |    || ||| || |||   |   | ||| | ||||| |||  | | | |     ||  || |||||||     || |   ||||  |||||||| ||| |||||||| || |||||||| || |||||||||||||||||||||||||| ||||| || |||||||| || ||||||||||||||||||
aattttggcatattttaaccagattttattttgttt---atgttgcagctgtcaattttggtagatgtagacggtccgttattgactt-----ttttccctggtg-cagGGAATGTCTAATTGATTTAATTGGGAACCCGGGATTCTTATCTGAACCTGACTCCCTCTTGAATGGACTATCATCCATCTCTGTTTCTTCACCATTGCGC
















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|29657929|gb|CB654204.1|CB654204
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|29660722|gb|CB656997.1|CB656997
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|58657512|gb|CK046192.1|CK046192
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAGTGACA-                         GGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|29680442|gb|CB676717.1|CB676717
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATTGATTTGATAGGGAACACAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|58691963|gb|CK080650.1|CK080650
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATAGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|29615687|gb|CB620699.1|CB620699
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|29678549|gb|CB674824.1|CB674824
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|29675289|gb|CB671564.1|CB671564
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
EST: gi|66922784|gb|CX109632.1|CX109632
EST:     TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAG                         GGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA
genomic: TGCAAATCTGCTGGTGCTGCTTCATGCCTGGTGCACTTTGGTAATGACAGgtttgtaatc ... ttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgttgaaatagcatctaatcacttcttgacttctattttatttttggtatcagGGAATATCTGATTGATTTGATAGGGAACCCAGGCTTCTTATCTGAACCTGACTCCCTCTTAAATGGGCTCTCATCCATTTCAGTTTCTTCACCATTGCGC
                         tcttgac  putative branch site (score: 3)
                               cttctattttattttt  CT-rich tract
                              acttctattttatttt  TA-rich tract