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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagtgttacacacaattggcatgtgatttctcattgcctggccattaacttgtacctgtaattgaacattattgacaagtgtttgtactatattccacagATTCCCAGACCAAGAGTAGTCTGATCGGGAAGCGTTTTGTAAAGATACTGGATTCAATCTCTGCTCCCCCTGCTTTTGCAGCAGCAGAGTTCCCAGCTAG

Basic information

species Oryza sativa
transcript LOC_Os08g44820.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44820.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G125777_T01 (Zea mays), 3'ss of exon 4
cagtgttacacacaattggcatgtgatttctcattgcctggccattaacttgtacctgtaattgaacattattgacaag-tgtttgtactatattccacagATTCCCAGACCAAGAGTAGTCTGATCGGGAAGCGTTTTGTAAAGATACTGGATTCAATCTCTGCTCCCCCTGCTTTTGCAGCAGCAGAGTTCCCAGCTAG---
   ||   ||| ||  | | |     |  | |  || ||| || ||  |||  |||||||| |  |||||  ||||||| | |||||  | | ||| ||||||   ||| | |||||||||   || || ||| | ||||||| |||  ||||||| |||||||||||||| |||||||||| ||   |||||||| |||    
-catgacccactcatgtaggagcatttggcactgtgtctgtcctttttcttacacctgtaaatagacattgatgacaaggtttttgtgttgtgttcaacagATGGTCAGGCTAAGAGTAGTACTATTGGAAAGGGATTTGTAAGGATTTTGGATTCGATCTCTGCTCCCCCAGCTTTTGCAGGAG---AGTTCCCATCTAACCA
















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|29673301|gb|CB669576.1|CB669576
EST:     CAGCTGGTAGCAGTTCCCATGCTTTTAGTGGGCCAGTCCTTACTCAAGAG                         ATTCCCAGACCAAGAGTAGTCTGATCGGGAAGCGTTTTGTAAAGATACTGG
genomic: CAGCTGGTAGCAGTTCCCATGCTTTTAGTGGGCCAGTCCTTACTCAAGAGgtacagtcat ... tattccacagATTCCCAGACCAAGAGTAGTCTGATCGGGAAGCGTTTTGTAAAGATACTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacttgtacctgtaattgaacattattgacaagtgtttgtactatattccacagATTCCCAGACCAAGAGTAGTCTGATCGGGAAGCGTTTTGTAAAGATACTGGATTCAATCTCTGCTCCCCCTGCTTTTGCAGCAGCAGAGTTCCCAGCTAG
                        tattgac  putative branch site (score: 2)
             taattgaacattatt  TA-rich tract