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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacctaatacttgagagctgccggaaggaactatgcctgaacttagttattcctatgattctgtttcattgaaccttcctgaagaagaaacattttgcagCGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGGAACAGGGATGGGATTAGGTCCACCAGTAGCTTCACTGTACATAACAGAG

Basic information

species Oryza sativa
transcript LOC_Os02g17500.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g17500.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G412899_T03 (Zea mays), 3'ss of exon 4
cacctaatacttgagagctgccggaaggaactatgcctgaacttagttattcct-----atgattctgtt--tcattgaaccttcctgaagaagaaacatt---ttgcagCGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGGAACAGGGATGGGATTAGGTCCACCAGTAGCTTCACTGTACATAACAGAG
          ||| | ||     ||| |  || || |    |  ||     |       |  ||  || |  | ||   |  |  || ||  |  | |||    |||||| |||||| |||||||| ||||||||||||| ||||||||||||||||| ||||||||||||||||| |||||||||||||||||||| || ||||| |||
----------ttgtgggcactgtgaaagctctttggccactcacagaagccctagaataagaatattgctaatgatgagaagtaactaaaacaatatcatacaattgcagTGCTCTCTCCAATAGTTTGGAGGGTATGCTCCTTGGAAGATTTTTGGTAGGAACAGGGATGGGATTGGGTCCACCAGTAGCTTCACTTTATATAACGGAG

upper sequence: LOC_Os02g17500.1 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv09s0002g04380.t01 (Vitis vinifera), 3'ss of exon 4
cacctaatacttgagagctgccggaaggaactatgcctgaacttagttattcctatgattctgtttcat-tgaaccttcctgaagaag-----aaacat---tttgcagCGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGGAACAGGGATGGGATTAGGTCCACCAGTAGCTTCACTGTACATAACAGAG
           | |   |  |  |   ||     | |      |  || || || | ||      | || || | ||| || ||         | || |    |||||| ||    || |  |||||||||||||||||||||||||| ||| | ||||| || || |||||  | || ||||| || | ||| || ||  |  |||||
---------tatcatgaccccaaggcagagtatggtccacctatcatttttactgttatctgaaattatgtggagcttactaaaaggatctccacacctgtacttgcagTGCAACAACAAGAAGTCTGGAGGGTATGCTTCTTGGAAGGTTTCTTGTTGGGACTGGAATGGGTATTGGCCCACCTGTTGTTTCTCTCTATGTGGCAGAG
















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|29643521|gb|CB648528.1|CB648528
EST:     CGCGCGTTTCAGCTCAGTGCGCTGCCCATGATCATCGGCGCTGCCGTAAG                         CGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGG
genomic: CGCGCGTTTCAGCTCAGTGCGCTGCCCATGATCATCGGCGCTGCCGTAAGgtaattcgtg ... cattttgcagCGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGG
EST: gi|218499348|gb|FG943597.1|FG943597
EST:     CGCGCGTTTCAGCTCAGTGCGCTGCCCATGATCATCGGCGCTGCCGTAAG                         CGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGG
genomic: CGCGCGTTTCAGCTCAGTGCGCTGCCCATGATCATCGGCGCTGCCGTAAGgtaattcgtg ... cattttgcagCGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttattcctatgattctgtttcattgaaccttcctgaagaagaaacattttgcagCGCTCTCACCAATAGTCTGGAGGGTATGCTTCTTGGAAGATTTTTGGTTGGAACAGGGATGGGATTAGGTCCACCAGTAGCTTCACTGTACATAACAGAG
                                          aaacatttt  TA-rich tract