Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGGCGGCGCCACCCACCTGCTTCATTGCTCACTCCGGCGGCGATGGCCGACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTGgtttggttccccttttttctttttccttctcttctctgctcgcggctcgccggcgcggcagcggatgggtctcgctgatgtgatggctggcctgtgtgcgcgcgcgcag

Basic information

species Oryza sativa
transcript LOC_Os11g35340.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g35340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G109032_T02 (Zea mays), 5'ss of exon 1
GGCGGCGGCGCC-ACCCACCTGCTTCATTGCTCACTCCGGCGGCGATGGCCGACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTGgtttggttccccttttttct--ttttccttctcttctctgctcgcggctcgccggcgcggcagcggatgg-gtctcgctgatgtgatggctggcctgtgtgcgcgcgcgcag
  |     ||||  ||  |   |  |   ||   |   ||| ||    | |||||||||||| |||   ||||||||||||||||| |||||||| |||||||| | |  |||  || |||  |||| |    |   ||||  || |      | ||  |  | | |||   | | ||   ||| || |||  | | ||| |  ||| |||||
-CCCTTTTCGCCTGCCTGCACACGCCGCCGCCGGCAATGGCCGCCTGCGACGACGACGTCGCCCCGTCAACCGCCTCCGCCTACCTTGACCCCTCTTACTGgttcgctctcccccttctctgcttttaccctacccttctgaccgagctgaagcagcaggcaatctgattctgacgcgacaatg-gacggcctggccgtgcggccgctcgcag
















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|88373272|gb|CI614608.1|CI614608
EST:     GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTAATG                         GGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC
genomic: GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTGgtttggttcc ... gcgcgcgcagGGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC
EST: gi|58654845|gb|CK043525.1|CK043525
EST:     GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTG                         GGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC
genomic: GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTGgtttggttcc ... gcgcgcgcagGGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC
EST: gi|88724103|gb|CI749113.1|CI749113
EST:     GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTG                         GGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC
genomic: GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTGgtttggttcc ... gcgcgcgcagGGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC
EST: gi|88392707|gb|CI623938.1|CI623938
EST:     GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTG                         GGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC
genomic: GACGACGTCGCGCCGCGCACCGCCTCCGCCTACCTCGACCCCTCCTACTGgtttggttcc ... gcgcgcgcagGGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTC