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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttgtaatttcatttatagaatcatgatcatttttcttaattccatcataagcactatcttactatctatgccaaatacagAGGGAGTCTGAAAAGCCAAAGGTAGTGAAATGGTACTTCCCACAACTCAGGCTTGACCAACTCATATGCAGTTACCCTTGGAAAAATTCAGAACTGACAG

Basic information

species Oryza sativa
transcript LOC_Os04g51370.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g51370.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G156638_T02 (Zea mays), 3'ss of exon 7
gtaag--cttgtaatttcatttata--gaatcatgatcatttttcttaattccatca-taagcactatcttactatctatgccaaatacagAGGGAGTCTGAAAAGCCAAAGGTAGTGAAATGGTACTTCCCACAACTCAGGCTTGACCAACTCATATGCAGTTACCCTTGGAAAAATTCAGAACTGACAG
|||||  || || ||||||   | |  || ||| |||| |||   || || |  ||| |  |||||  |||||| | | ||| ||   ||||| || ||  | |||||| || | |  || |||||||||||||| || | ||||||| |||||||||| |  || |||||||| ||||| ||||||||||
gtaagttctcgtgatttcacccaaaatgactcaggatcctttggttttatactgtcactgtgcactgccttactctgt-tgctaatagcagAGAGACTCCAAGAAGCCACAGATGGGAAAGTGGTACTTCCCACACCTAAAGCTTGACAAACTCATATGTACCTATCCTTGGAACAATTCCGAACTGACAG
















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:     ATGGTATTGGCAGTTCTTACAGATTGTTAACTGAAGAGGAGATTGAAGTG                         AGGGAGTCTGAAAAGCCAAAGGTAGTGAAATGGTACTTCCCACAACTCAGG
genomic: ATGGTATTGGCAGTTCTTACAGATTGTTAACTGAAGAGGAGATTGAAGTGgtaagcttgt ... ccaaatacagAGGGAGTCTGAAAAGCCAAAGGTAGTGAAATGGTACTTCCCACAACTCAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatttttcttaattccatcataagcactatcttactatctatgccaaatacagAGGGAGTCTGAAAAGCCAAAGGTAGTGAAATGGTACTTCCCACAACTCAGGCTTGACCAACTCATATGCAGTTACCCTTGGAAAAATTCAGAACTGACAG
                              atcttac  putative branch site (score: 3)
     ttttcttaatt  TA-rich tract