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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattattcatttcatttactgtttgctaaagaaaaaatctagacaagtttattccccaaaagaaaaaaaaatctagacaagtcatgttgtgatcattattttgaaataagcttgcatcgatattttctgcagGTCGTACTGGCAAGGTGTAGCAGATATATTACTGATACTTGCATTGACCCTGTTGAACTGTTGGCATGTTTAAAG

Basic information

species Oryza sativa
transcript LOC_Os09g19734.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g19734.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G022837_T01 (Zea mays), 3'ss of exon 5
gtaaattattcatttcatttactgtttgctaaagaaaaaatctagacaagtttattccccaaaagaaaaaaaaatctagacaagtc-atgttgtgatcattattttgaaataagcttgcatcgatattttctgcagGTCGTACTGGCAAGGTGTAGCAGATATATTACTGATACTTGCATTGACCCTGTTGAACTGTTGGCATGTTTAAAG
                                                            ||            |||  |   ||  |    ||       | | ||||   || |  |  |  | |||  | ||||| ||||||||||||||||||||||| |||||||| ||||||||||||||||| |||||| |||| || || |||
----------------------------------------------------------gtaagccgttttttgttctctatttgtttagagcgtatctgaaaatatgaatggagttacctaccttctttcttacagGTTGTACTGGCAAGGTGTAGCAGATACATTACTGACACTTGCATTGACCCTGTGGAACTGCTGGCTTGCTTGAAG
















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|58689202|gb|CK077889.1|CK077889
EST:     TTACCAAAGCTCTCCAGATGATTAAAGGGAAGCAAAGAGAATTAGTAAAG                         GTCGTACTGGCAAGGTGTAGCAGATATATTACTGATACTTGCATTGACCCT
genomic: TTACTAAAGCTCTCCAGATGATTAAAGGGAAGCAAAGAGAATTAGTAAAGgtaaattatt ... ttttctgcagGTCGTACTGGCAAGGTGTAGCAGATATATTACTGATACTTGCATTGACCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagtcatgttgtgatcattattttgaaataagcttgcatcgatattttctgcagGTCGTACTGGCAAGGTGTAGCAGATATATTACTGATACTTGCATTGACCCTGTTGAACTGTTGGCATGTTTAAAG
                                           tattttct  CT-rich tract
              atcattattttgaaat  TA-rich tract