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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttggattcaaaacatggattgttgttatcttcagataccaatatattttgcattacatagattgtttgactgcacttgtttccatggacacagGGAAGTGTGACAGGCCTCAAGCCACGGCCAGTCCGTCCAGGAATGTTCCTTGAGACGGTTTCTAAG

Basic information

species Oryza sativa
transcript LOC_Os11g23790.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g23790.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G079452_T02 (Zea mays), 3'ss of exon 6
gtaagctttggattcaaaacatggattgttgttatcttcagataccaata--tattttgcattacatagattgtttgactgcacttgtttccatggacac-agGGAAGTGTGACAGGCCTCAAGCCACGGCCAGTCCGTCCAGGAATGTTCCTTGAGACGGTTTCTAAG
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gtgagttttgagttcaaa--ttggtacattagtatcttcagaagttagcagatattttgcatta-ataaagtattcg-ctgcacatgcttatgtgacctttagGGAAGTGTATCTGGCCACAAGCCACGGCCAGTCCGCCCTGGAATGTTCCTTGAGACTGTTTCCAAG
















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|87018909|gb|CI256794.1|CI256794
EST:     ATGCTGGACCAGATTCTAAGCTTAATCATCTAACTGGGATATCTGGAAGG                         GGAAGTGTGACAGGCCTCAAGCCACGGCCAGTCCGTCCAGGAATGTTCCTT
genomic: ATGCTGGACCAGATTCTAAGCTTAATCATCTAACTGGGATATCTGGAAGGgtaagctttg ... atggacacagGGAAGTGTGACAGGCCTCAAGCCACGGCCAGTCCGTCCAGGAATGTTCCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatatattttgcattacatagattgtttgactgcacttgtttccatggacacagGGAAGTGTGACAGGCCTCAAGCCACGGCCAGTCCGTCCAGGAATGTTCCTTGAGACGGTTTCTAAG
                         gtttgac  putative branch site (score: 4)
                                        tttccat  putative PPT
             attacata  TA-rich tract