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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattgaccttcagtactagaatttcttccaaacatattcttttattgatattaaatctgttcttattctgatcaatgaccacgtttgtactttcagGCGAAGTGTATCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCGATTAATAAGGTCATATGTTCAAAGACGTGGTCGTGGACCCCTCAATTGG

Basic information

species Oryza sativa
transcript LOC_Os02g57750.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57750.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G081965_T01 (Zea mays), 3'ss of exon 3
gtatattg-accttcagtactagaatttcttccaaacatattcttttattgatattaaatctgttcttattctgatcaatgaccacgtt-tgtactttcagGCGAAGTGTATCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCGATTAATAAGGTCATATGTTCAAAGACGTGGTCGTGGACCCCTCAATTGG
|||| ||  |||||||||  | | |||||||| ||| || | |||| |||     | ||||| || ||||||| |        || ||| || | |  |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||   ||||||| ||| |||||||| |||
gtattttctaccttcagtg-tggtatttcttctaaaaatgt-ctttaatt-----tcaatctatttttattctcaagctatttcatgttctgaattgccagGCGAAGTGTGTCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCGATTAATAAGGTCATATGTTCAACAGCGTGGTCATGGTCCCCTCAACTGG
















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|29629808|gb|CB634817.1|CB634817
EST:     CCAGATGATGACAATGTGTACAGCATGGAACTGAGAGAATTGCTTAGCAG                         GCGAAGTGTATCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCG
genomic: CCAGATGATGACAATGTGTACAGCATGGAACTGAGAGAATTGCTTAGCAGgtatattgac ... gtactttcagGCGAAGTGTATCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCG
EST: gi|29615118|gb|CB620131.1|CB620131
EST:     CCAGATGATGACAATGTGTACAGCATGGAACTGAGAGAATTGCTTAGCAG                         GCGAAGTGTATCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCG
genomic: CCAGATGATGACAATGTGTACAGCATGGAACTGAGAGAATTGCTTAGCAGgtatattgac ... gtactttcagGCGAAGTGTATCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattgatattaaatctgttcttattctgatcaatgaccacgtttgtactttcagGCGAAGTGTATCCAATCTTCTTAGTAATGGTTTTGGTGAAAGTTTGGAGCGATTAATAAGGTCATATGTTCAAAGACGTGGTCGTGGACCCCTCAATTGG
                        ttctgat  putative branch site (score: 3)
                                              tactttc  putative PPT
      atattaaatctgtt  TA-rich tract