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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagtcccgcacatgctgatactatgaactagggttttctttttgttcaagagctgacaaagcattgtttccattcctgttttccagATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCTTT

Basic information

species Oryza sativa
transcript LOC_Os02g02750.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g02750.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G466281_T02 (Zea mays), 3'ss of exon 2
gtgagagtcccg--cacatgctgatactatgaactagggttttctttttgttcaagagctgacaaagcattgtttccattcctgttttccagATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCTTT
|| ||||| |    ||||| ||| ||| |||||||   ||  |  ||||||| ||   ||||    | |||| | | |||  |||||||||||||||||||||||| |||||||||||| ||||||| |||||||||||||||
gtaagagttcaattcacatactgttacaatgaact---gtgcttcttttgttgaaatcctga----gtattgatgc-att--tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
















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|11172065|gb|AU164099.1|AU164099
EST:     CCCGCTCTGGTTCCCGCCAAATATG                         ATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCNNN
genomic: CCCGCTCTGGTTCCCGCCAAATATGgtgagagtcc ... tgttttccagATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCTTT
EST: gi|29646388|gb|CB651395.1|CB651395
EST:     CCCGCTCTGGTTCCCGCCAAATATG                         ATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCNNN
genomic: CCCGCTCTGGTTCCCGCCAAATATGgtgagagtcc ... tgttttccagATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttttctttttgttcaagagctgacaaagcattgtttccattcctgttttccagATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCTTT
                   agctgac  putative branch site (score: 3)
                                ttgtttccattcctgt  putative PPT
       tttttgtt  TA-rich tract