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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaccgccttcgcaacctccatgcgttctccaagccagaaggcatttcaaagttccaaaacgtttcttgcttgcgcgtgtgaagAGCCGCCGCGGCCGCGCTGATGCTCGCCGGCGGCGACGAGGCGCACAAGTTCATGGGGCGGCCGCGCCTGGACCGCGTCGATTTCGCCAGCATGATGAAC

Basic information

species Oryza sativa
transcript LOC_Os03g21160.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g21160.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G003424_T03 (Zea mays), 3'ss of exon 1
gtactaccgccttcgcaacctccatgcgttctccaagccagaaggcatttcaaagttccaaaacgtttcttgcttgcgcgtgtgaagAGCCGCCGCGGCCGCG---CTGATGCTCGCCGGCGGCGACGAGGCGCACAAGTTCATGGGGCGGCCGCGCCTGGACCGCGTCGATTTCGCCAGCATGATGAAC-------------------------------------------------------
                                             |    ||||| ||||   | ||| | || || ||| ||| |||||||| |||||||||   |||||||| | |||||||||||||||||||||||||||||  ||||||||||||||||| | ||| ||||| ||||||||||||                                                       
-------------------------------------------ttcgcaccaaagctccag--cctttttcgcctgtgcgcgtgcagagccgcggcggccgcgtctctgatgctgggcggcggcgacgaggcgcacaagttcatgGCCCGGCCGCGCCTGGACCGTGCCGACTTCGCTAGCATGATGAACCCCGGCTCGCGCCAGATTTATCTGACCTTCCCGGCCGACAGCACGTTCCGCGAGG

upper sequence: LOC_Os03g21160.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G086614_T01 (Zea mays), 3'ss of exon 1
---gtactaccgccttcgcaacctccatgcgttctccaagccagaagg---catttcaaagttccaaaacgtttcttgcttgcgcgtgtgaagAGCCGCCGCGGCCGCG---CTGATGCTCGCCGGCGGCGACGAGGCGCACAAGTTCATGGGGCGGCCGCGCCTGGACCGCGTCGATTTCGCCAGCATGATGAAC
   |     |||||||  |||  ||      | | |||| |  |||     |    ||||| ||||   | ||| | || ||  || ||| |||||||| |||||||||   |||||||| | |||||||||||||||||||||||||||||| ||||||||||||||||| |  || ||||| | |||||||   
gtagagaagccgcctttacaagttctt----tcccccaaactcgaatcattcgcaccaaagctccag--cctttttcgcctgttcgcgtgcagAGCCGCGGCGGCCGCGTCTCTGATGCTGGGCGGCGGCGACGAGGCGCACAAGTTCATGGGCCGGCCGCGCCTGGACCGTGCTGACTTCGCGAACATGATG---

upper sequence: LOC_Os03g21160.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G003424_T01 (Zea mays), 3'ss of exon 1
gtactaccgccttcgcaacctccatgcgttctccaagccagaaggcatttcaaagttccaaaacgtttcttgcttgcgcgtgtgaagAGCCGCCGCGGCCGCG---CTGATGCTCGCCGGCGGCGACGAGGCGCACAAGTTCATGGGGCGGCCGCGCCTGGACCGCGTCGATTTCGCCAGCATGATGAAC----------------------------------------------------------------------
                                                             | | ||| | || || ||| ||| |||||||| |||||||||   |||||||| | |||||||||||||||||||||||||||||  ||||||||||||||||| | ||| ||||| ||||||||||||                                                                      
------------------------------------------------------------cagcctttttcgcctgtgcgcgtgcagagccgcggcggccgcgtctctgatgctgggcggcggcgacgaggcgcacaagttcatggcccggccgcgcctgGACCGTGCCGACTTCGCTAGCATGATGAACCCCGGCTCGCGCCAGATTTATCTGACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACT

upper sequence: LOC_Os03g21160.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G819035_T01 (Zea mays), 3'ss of exon 2
---gtactaccgccttcgcaacctccatgcgttctccaagccaga--aggcatttcaaagttccaaaacgtttcttgcttgcgcgtgtgaagAGCCGCCGCGGCCGCG---CTGATGCTCGCCGGCGGCGACGAGGCGCACAAGTTCATGGGGCGGCCGCGCCTGGACCGCGTCGATTTCGCCAGCATGATGAAC
   |  |  | |||||  |||  ||       ||   ||  |  |  |  |    ||||| ||||   | ||| | || || | | ||| |||||||| |||||||||   |||||||| | |||||||||||||||||||||||||||||  ||||||||||||||||| | ||| ||||||||| |||||   
gtagagcagctgcctttacaagttctg---actccgaaactcgaatcattcgcaccaaagctccag--cctttttcgcctgtgtgcgtgcagAGCCGCGGCGGCCGCGTCTCTGATGCTGGGCGGCGGCGACGAGGCGCACAAGTTCATGGCCCGGCCGCGCCTGGACCGTGCCGACTTCGCCAGCCTGATG---

upper sequence: LOC_Os03g21160.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G003424_T02 (Zea mays), 3'ss of exon 1
---gtactaccgccttcgcaacctccatgcgttctccaagccagaagg---catttcaaagttccaaaacgtttcttgcttgcgcgtgtgaagAGCCGCCGCGGCCGCG---CTGATGCTCGCCGGCGGCGACGAGGCGCACAAGTTCATGGGGCGGCCGCGCCTGGACCGCGTCGATTTCGCCAGCATGATGAAC
   |  |  |||||||  |||  ||     |  | | || |  |||     |    ||||| ||||   | ||| | || || ||| ||| |||||||| |||||||||   |||||||| | |||||||||||||||||||||||||||||  ||||||||||||||||| | ||| ||||| |||||||||   
gtagagcagccgcctttacaagttct----gaccccgaaactcgaatcgttcgcaccaaagctccag--cctttttcgcctgtgcgcgtgcagAGCCGCGGCGGCCGCGTCTCTGATGCTGGGCGGCGGCGACGAGGCGCACAAGTTCATGGCCCGGCCGCGCCTGGACCGTGCCGACTTCGCTAGCATGATG---


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaagccagaaggcatttcaaagttccaaaacgtttcttgcttgcgcgtgtgaagAGCCGCCGCGGCCGCGCTGATGCTCGCCGGCGGCGACGAGGCGCACAAGTTCATGGGGCGGCCGCGCCTGGACCGCGTCGATTTCGCCAGCATGATGAAC
              atttcaaa  TA-rich tract