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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaataacccatgtttctgattattctttgctccattcaaagggcctttctaattcgacctttcaatcttgtggcacttgatgtcatatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGTGTGGTCATTAAGTTTTACCCATCTGATGT

Basic information

species Oryza sativa
transcript LOC_Os11g04980.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g04980.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G176546_T01 (Zea mays), 3'ss of exon 1
gtaaataacccatgtttctgattattctttgctccattcaaagggcctttctaattcgacctttcaatcttgtggcacttgatgtcatatttcc--agGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGTGTGGTCATTAAGTTTTACCCATCTGATGT
||||||   ||||  |||||||||||||||||| |||    |  |   || || ||  || ||||      |||  | | ||| |||| ||| |  |||||| ||||||||||||| |||||||||| ||||||||||||||||||||  |   ||||||||||||||| || |||||
gtaaatcggccatccttctgattattctttgcttcatcagcaaagttcttttacttgtacatttcggatcggtgatattggatatcattttttctcagGGAGCTGTTCTTTCTCATGGGAACTTAATTGCAAATGTAGCAGGATCAAGCCTAAACATTAAGTTTTACCCCTCCGATGT
















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|29679209|gb|CB675484.1|CB675484
EST:     AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAG                         GGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
genomic: AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAGgtaaataacc ... atatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
EST: gi|29679207|gb|CB675482.1|CB675482
EST:     AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAG                         GGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
genomic: AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAGgtaaataacc ... atatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
EST: gi|33676001|gb|CF304240.1|CF304240
EST:     AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAG                         GGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAG
genomic: AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAGgtaaataacc ... atatttccagGG-AGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAG
EST: gi|58696224|gb|CK084911.1|CK084911
EST:     AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAG                         GGAGTTGTTCTTTCTCATAGGAACTTAATCGCGAATGTAGCAGGATCAAGT
genomic: AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAGgtaaataacc ... atatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
EST: gi|29671403|gb|CB667678.1|CB667678
EST:     AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAG                         GGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
genomic: AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAGgtaaataacc ... atatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
EST: gi|58663800|gb|CK052486.1|CK052486
EST:     AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAG                         GGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
genomic: AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAGgtaaataacc ... atatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
EST: gi|29670550|gb|CB666825.1|CB666825
EST:     AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAG                         GGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT
genomic: AAGATGTTGCCACTATTTGTTACACTAGTGGCACAACCGGCACACCAAAGgtaaataacc ... atatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggcctttctaattcgacctttcaatcttgtggcacttgatgtcatatttccagGGAGTTGTTCTTTCTCATAGGAACTTAATCGCAAATGTAGCAGGATCAAGTGTGGTCATTAAGTTTTACCCATCTGATGT
                                              tatttcc  CT-rich tract
      tttctaatt  TA-rich tract