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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagttattattgtatggctctcctgaatctgcaaattagagctgttagaataaagcttggaagtttgatatatgttctcaggtcttgcattttgattcagAGACAGAAAAGGCAGAGCGGGTGATACTGGTTGATTTCCTAAAGGGGCTTCTGAAATTTGATCCCAATGAGCGATGGTCGCCATTGCAG

Basic information

species Oryza sativa
transcript LOC_Os04g51370.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g51370.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G156638_T02 (Zea mays), 3'ss of exon 8
tagttattattgtatggctctcctgaatctgcaaattagagctgttagaataaagcttgg-aagtttgatat-atgttctcaggtcttgcattttgattcagAGACAGAAAAGGCAGAGCGGGTGATACTGGTTGATTTCCTAAAGGGGCTTCTGAAATTTGATCCCAATGAGCGATGGTCGCCATTGCAG
  |  ||  ||     | | ||||||||  ||| || |||  | ||| |||||||||| | ||||||||||| ||||||||||||||| |||||||||||||||||||||||    || ||  ||  | | ||||||||| | ||||| || ||  |||||||||| ||| || ||||||| |||||||||
--gacatcttttagctggtttcctgaatacgcagatgagacttcttacaataaagctttgcaagtttgatattatgttctcaggtcttacattttgattcagAGACAGAAAAAATGGATCGTTTGGGATTAGTTGATTTCTTGAAGGGTCTCCTTGAATTTGATCCAAATAAGAGATGGTCACCATTGCAG
















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|29636342|gb|CB641351.1|CB641351
EST:     GCTTGACCAACTCATATGCAGTTACCCTTGGAAAAATTCAGAACTGACAG                         AGACAGAAAAGGCAGAGCGGGTGATACTGGTTGATTTCCTAAAGGGGCTTC
genomic: GCTTGACCAACTCATATGCAGTTACCCTTGGAAAAATTCAGAACTGACAGgtttgttttc ... tttgattcagAGACAGAAAAGGCAGAGCGGGTGATACTGGTTGATTTCCTAAAGGGGCTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaataaagcttggaagtttgatatatgttctcaggtcttgcattttgattcagAGACAGAAAAGGCAGAGCGGGTGATACTGGTTGATTTCCTAAAGGGGCTTCTGAAATTTGATCCCAATGAGCGATGGTCGCCATTGCAG
                                            ttttgat  putative branch site (score: 4)
                  tttgatatat  TA-rich tract