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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatcatctacttgaaaacagatggagtatcttttatagatagatacctgcctttatgctcaatcctgttgctaatagtaagttcttgactttgttgcagGTGGCAAATCCAATAACCAA

Basic information

species Oryza sativa
transcript LOC_Os02g01100.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g01100.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G105192_T04 (Zea mays), 3'ss of exon 7
acatcatctacttgaaaacagatggagtatcttttatagatagatacctgcctttatgctc-aatcctgttgctaatagtaagt-tcttgactt-tgttgcagGTGGCAAATCCAATAACCAA--
  |  ||||  |    |  | ||  ||| | ||||||        | | |   | ||  |   ||  | |       |  |||| |||  |||| | ||||||||||||||||||||||||||  
--aggatcttttgtctaggatatt-agtcttttttatctgatttgagcagttctcatattttgattatatcatgctgaacaagtctctcaacttctattgcagGTGGCAAATCCAATAACCAAAT

upper sequence: LOC_Os02g01100.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G105192_T03 (Zea mays), 3'ss of exon 6
acatcatctacttgaaaacagatggagtatcttttatagatagatacctgcctttatgctc-aatcctgttgctaatagtaagt-tcttgactt-tgttgcagGTGGCAAATCCAATAACCAA
  |  ||||  |    |  | ||  ||| | ||||||        | | |   | ||  |   ||  | |       |  |||| |||  |||| | ||||||||||||||||||||||||||
--aggatcttttgtctaggatatt-agtcttttttatctgatttgagcagttctcatattttgattatatcatgctgaacaagtctctcaacttctattgcagGTGGCAAATCCAATAACCAA

upper sequence: LOC_Os02g01100.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G134888_T01 (Zea mays), 3'ss of exon 7
----------acatcatctacttgaaaacagatggagtatcttttatagatagatacctgcctttatgctcaatcctgttgctaatagtaagttcttgac-tttgttgcagGTGGCAAATCCAATAACCAA
          |  | || || ||  |||| || | ||||      | | | ||   |   ||||  || | |||  |  |     || | |  ||| ||   ||  |||||||||||||||||||||||||
tgaccctaagaattaatttattttgaaacggaggtagta------agaaaaagggcctgaccttgttgtttaataataat-----taatcatctctcgatgcttactgcagGTGGCAAATCCAATAACCAA

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|29678444|gb|CB674719.1|CB674719
EST:     TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACG                         GTGGCAAATCCAATAACCAA
genomic: TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACGgtaatgccaa ... tttgttgcagGTGGCAAATCCAATAACCAA
EST: gi|27548100|gb|CA766182.2|CA766182
EST:     TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACG                         GTGGCAAATCCAATAACCAA
genomic: TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACGgtaatgccaa ... tttgttgcagGTGGCAAATCCAATAACCAA
EST: gi|87006659|gb|CI295042.1|CI295042
EST:     TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACG                         GTGGCAAATCCAATAACCAA
genomic: TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACGgtaatgccaa ... tttgttgcagGTGGCAAATCCAATAACCAA
EST: gi|86498766|gb|CI141399.1|CI141399
EST:     TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACG                         GTGGCAAATCCAATAACCAA
genomic: TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACGgtaatgccaa ... tttgttgcagGTGGCAAATCCAATAACCAA
EST: gi|29663318|gb|CB659593.1|CB659593
EST:     TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACG                         GTGGCAAATCCAATAACCAA
genomic: TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACGgtaatgccaa ... tttgttgcagGTGGCAAATCCAATAACCAA
EST: gi|29659581|gb|CB655856.1|CB655856
EST:     TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACG                         GTGGCAAATCCAATAACCAA
genomic: TGAACTTACCAGAGAATTTGGTGGTTTCAAAGGTTGCTGTCTGGACCACGgtaatgccaa ... tttgttgcagGTGGCAAATCCAATAACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctgcctttatgctcaatcctgttgctaatagtaagttcttgactttgttgcagGTGGCAAATCCAATAACCAA
                                            ctttgtt  CT-rich tract
                           taatagtaa  TA-rich tract