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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCCAGGAGTTGGTATCTTCTCATGATGCTGTCTTCTTGCTGACCGACACAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttgtgtgtattcttcactaatgtagacttgtgaagtgttacatgataatatccctcgcaccgcag

Basic information

species Oryza sativa
transcript LOC_Os01g42850.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g42850.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G005304_T01 (Zea mays), 5'ss of exon 10
CCTCCAGGAGTTGGTATCTTCTCATGATGCTGTCTTCTTGCTGACCGACACAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttgtgtgtattcttcactaatgtaga--cttgtgaagtgttacatgataata-tccctcgcaccgcag-------------------------
 || ||    || ||  || |  |||||||  |||||||| | || |||||| |||| || |||||||||||||| ||||||||  ||| ||||||||||||||| ||||       | |  | |     ||   ||| | |  ||||     | |  | |  ||     |  ||                         
TCTGCAAACCTTAGTGGCTGCCAATGATGCAATCTTCTTGTTAACTGACACATGGGAGAGCAGGTGGCTTCCAACTCTTCTCTGTTCAAGTGAAAACAAGgtaatgcttgaacacggtatctattggctaaggaccttttcagctgttcttgtacagcaatgtctaagttcttaggctttctccaatgggatactctata

upper sequence: LOC_Os01g42850.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G005304_T01 (Zea mays), 5'ss of exon 16
CCTCCAGGAGTTGGTATCTTCTCATGATGCTGTCTTCTTGCTGACCGACACAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttgtgtgtattcttcactaatgtagacttgtgaa-gtgttacatgataatatccctc-gcaccgcag
|||  |||| ||||| |  || || |||||| |||||||| ||||||||||||| ||||| |||||||||||||| || || ||| | || ||||||||||| |  | | |  | || ||| | |||||||||| |  ||| |||||||||| ||||  ||||| |||| ||||
CCTTAAGGAATTGGTGTTGTCCCACGATGCTATCTTCTTGTTGACCGACACAAGAGAAAGCAGGTGGCTTCCAACTCTCCTATGCACTAACGAAAACAAGgtgaaccctctaggcatccttgaataatgtagaccttggaatgtgttacatgctaatgcccctctgcactgcag

upper sequence: LOC_Os01g42850.1 (Oryza sativa), 5'ss of exon 16
lower sequence: Vv10s0003g01150.t01 (Vitis vinifera), 5'ss of exon 12
CCTCCAGGAGTTGGTATCTTCTCATGATGCTGTCTTCTTGCTGACCGACACAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgt-aattcttgtgtgtattcttcactaatgtagacttgtgaagtgttacatgataatatccctcgcaccgcag---------------------------------------------------------------------------------------------------------
|||    || ||| |    ||||||||||| || ||||||||||| || |||||||||||| | ||||||||||||||||| || || ||||  ||||||||  || | | |       ||||| | |        | |   |   | ||   |    ||  ||   |    |                                                                                                         
CCTTTGTGAATTGATTGAATCTCATGATGCAGTTTTCTTGCTGACTGATACAAGGGAAAGTCGATGGCTTCCAACACTTCTTTGTGCCAATGCTAACAAGgttgatccctttaatctcacttcattcaaaattttatttttggcactgcactcttgattcattcaagcttgggtcaagttttaatcaagcatgattctcatgtgtctggcctgaatagttgtactgttgattctttgagaaagtatcttaattttgtgtcattttttttcctatgcag

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|29677767|gb|CB674042.1|CB674042
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29672225|gb|CB668500.1|CB668500
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29667791|gb|CB664066.1|CB664066
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29641126|gb|CB646133.1|CB646133
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|33682080|gb|CF310319.1|CF310319
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAN
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACA-
EST: gi|29674598|gb|CB670873.1|CB670873
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29640245|gb|CB645254.1|CB645254
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29627979|gb|CB632990.1|CB632990
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAATAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29629460|gb|CB634469.1|CB634469
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAATAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29674600|gb|CB670875.1|CB670875
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
EST: gi|29642677|gb|CB647684.1|CB647684
EST:     CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAG                         ATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT
genomic: CAAGGGAAAGTAGGTGGCTTCCAACACTTCTCTGCGCAAATGAAAACAAGgtaattcttg ... cgcaccgcagATTGCTATTACTGCAGCATTAGGATATGACAGTTACCTTGTCATGCGACAT