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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcatcactcatgcttttgcttagtcaatttatcactgtgctttttttgttcttcgtttaatccatgcctgcataatgcaagctagagtcttgaagatggatctgctattcttattttcgtaatttatgtacctcttttgcagATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAATAACTCATCAGACTCGTTGGAAACTCATACACTTTCATTTGAACTCAACA

Basic information

species Oryza sativa
transcript LOC_Os01g43030.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43030.1 (Oryza sativa), 3'ss of exon 19
lower sequence: GRMZM2G047093_T01 (Zea mays), 3'ss of exon 19
gtattcatcactcatgcttttgcttagtcaatttatcactgtgctttttttgttcttcgtttaatccatgcctgcataatgcaagctagagtcttgaagatggatctgctattcttattttcgtaatttatgtacctcttttgcagATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAATAACTCATCAGACTCGTTGGAAACTCATACACTTTCATTTGAACTCAACA
              |||  | || | | |  | |||   ||||   | ||| |   |  |||      | |   ||   |||||| ||   | | | || | ||  | |||   |  |||  ||  |||       | |||||||||||||| |||| ||||| ||||  ||||| || ||||||||||||||||||||||| |||||||| || || || |||| |||||||||||| || | ||
---------gtatgtgcact-gcatggcct-tgtatttttgtgtggtatttatcagttttttg-----tactcacaggttgcaagttatc-tgtggtagctagaagttctaccttggtttatgtttttt------tttttttgcagATTGAAGACCCGCTTGCAGAAGCCACAAAATACTTGAAGCTTCTGCAGAATAACTCGTCAGACTCATTAGAGACCCATATACTTTCATTTGAGCTAAGCA
















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|87005314|gb|CI285536.1|CI285536
EST:     AAAACGCAAGACCAGTTGATTTGGATCCACATGGTGAAAAGTTAGTGCAG                         ATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAAT
genomic: AAAACGCAAGACCAGTTGATTTGGATCCACATGGTGAAAAGTTAGTGCAGgtattcatca ... tcttttgcagATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAAT
EST: gi|33794849|gb|CF323303.1|CF323303
EST:     AAAACGCAAGACCAGTTGATTTGGATCCACATGGTGAAAATTTAGTGCAG                         ATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAAT
genomic: AAAACGCAAGACCAGTTGATTTGGATCCACATGGTGAAAAGTTAGTGCAGgtattcatca ... tcttttgcagATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAAT
EST: gi|58694649|gb|CK083336.1|CK083336
EST:     AAAACGCAAGACCAGTTGATTTAGATCCACATGGTGAAAAGTTAGTGCAG                         ATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAAT
genomic: AAAACGCAAGACCAGTTGATTTGGATCCACATGGTGAAAAGTTAGTGCAGgtattcatca ... tcttttgcagATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgaagatggatctgctattcttattttcgtaatttatgtacctcttttgcagATTGAAAACCCACTTGCTGAAGGAACAAAGTATTTGAAGCTTCTGCAGAATAACTCATCAGACTCGTTGGAAACTCATACACTTTCATTTGAACTCAACA
                                         tacctctttt  CT-rich tract
                  tattcttattttcgta  TA-rich tract