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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attagttatgctatatacagtcctactttggtaatctgtcatcttggcgatatctagttcttgtctggcaaaaagtataatgtaaactgccatgatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGTTCAAACAATATGCCTGGACGCACATGATCCTTTTAACGGTTTTTGCACA

Basic information

species Oryza sativa
transcript LOC_Os01g55360.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g55360.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G452529_T02 (Zea mays), 3'ss of exon 4
attagttatgctatatacagtcctactttggtaatctgtcatcttggcgatatctagttcttgtctggcaaaaagt--ataatgtaaactgccatgatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGTTCAAACAATATGCCTGGACGCACATGATCCTTTTAACGGTTTTTGCACA
    ||  || ||   |   |   |     |  | |   | | |     || ||| |||| |  || |||||||||   || |     || |  ||||||||| ||||| ||||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||| |||||||| |||||||| |||||||||||
--atgtgttgatagtcatgatttaatagcagataaccagcttatcataaatttctggttcgtacctagcaaaaagttagtatttatggctcctttgatccagGGTTTGTATGGTTTATTTTGACTCTCAAGAAAAAGACATACAAGTATCAGTTCAAACAGTATGCCTGGACACACATGATACTTTTAACAGTTTTTGCACA

upper sequence: LOC_Os01g55360.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G825110_T02 (Zea mays), 3'ss of exon 4
attagttatgctatatacagtcctactttggtaatctgtcatcttggcg---atatctagttcttgtctggcaaaaagtataatgtaaactgccat---gatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGTTCAAACAATATGCCTGGACGCACATGATCCTTTTAACGGTTTTTGCACA
    | | || |    ||| || | ||||  |||    | | ||   |    || ||| |||| | | | || ||||  ||| | |  |  ||  |   | |||||| ||||| ||||||||||||||||| |||||||||||||| ||||| ||||||||||| |||||||||||||||||||| ||| ||||||||||||||||
---ggatgtgttg---acaatcatgctttaataacaaataacctgctcatgaatttctggttcgtatttagccaaaaaaatagtatttatggctctttcgttccagGTTTTGTATGGTTTATTTTGACTCTCAAGAAAAAGACATATAAGTACCAGTTCAAACAGTATGCCTGGACGCACATGATACTTCTAACGGTTTTTGCACA

upper sequence: LOC_Os01g55360.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G825110_T01 (Zea mays), 3'ss of exon 4
attagttatgctatatacagtcctactttggtaatctgtcatcttggcgatatctagttcttgtctggcaaaaagtataatgtaaactgccat---gatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGTTCAAACAATATGCCTGGACGCACATGATCCTTTTAACGGTTTTTGCACA-----------------------------------
                                       |  ||     || ||| |||| | | | || ||||  ||| | |  |  ||  |   | |||||| ||||| ||||||||||||||||| |||||||||||||| ||||| ||||||||||| |||||||||||||||||||| ||| ||||||||||||||||                                   
--------------------------------------cctgctcatgaatttctggttcgtatttagccaaaaaaatagtatttatggctctttcgttccaggttttgtatggtttattttgactctcaagaaaaagACATATAAGTACCAGTTCAAACAGTATGCCTGGACGCACATGATACTTCTAACGGTTTTTGCACAGTCTGCTTTCACTGTGGCAAACATATTTGAAGGGA

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|29671303|gb|CB667578.1|CB667578
EST:     TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTG                         GATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT
genomic: TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTGgtaagtacag ... catgatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT
EST: gi|29681974|gb|CB678249.1|CB678249
EST:     TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTG                         GATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT
genomic: TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTGgtaagtacag ... catgatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT
EST: gi|29673386|gb|CB669661.1|CB669661
EST:     TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTG                         GATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT
genomic: TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTGgtaagtacag ... catgatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT
EST: gi|29679197|gb|CB675472.1|CB675472
EST:     TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTG                         GATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT
genomic: TGGTCTCATAAAGTATCAGATGTTCATTTGCTATTTTCTTTACATTGCTGgtaagtacag ... catgatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcgatatctagttcttgtctggcaaaaagtataatgtaaactgccatgatccagGATTTGTCTGGTTTATTTTGACTCTGAAGAAAAAGACATACAAGTATCAGTTCAAACAATATGCCTGGACGCACATGATCCTTTTAACGGTTTTTGCACA
                        aaaaagtataatgtaa  TA-rich tract