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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGAGGCGAAGGAGTGGGTCGCCCAGGTGGAGCCCGGCGTGCTCATCACCTTCCTCTCGCTGCCGGAGGGCGGCAACGACCTCAAACGGATCCGATTCAGgtgagttttttgcgctcatctctcacaagttttgcatcgtagtagagcactatgatttgattcatctttacaaagttacaaacaagtagtgttttgagtt...

Basic information

species Oryza sativa
transcript LOC_Os08g36020.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g36020.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G037941_T01 (Zea mays), 5'ss of exon 2
ACGAGGCGAAGGAGTGGGTCGCCCAGGTGGAGCCCGGCGTGCTCATCACCTTCCTCTCGCTGCCGGAGGGCGGCAACGACCTCAAACGGATCCGATTCAGgtgagttttttgcgctcatctctcacaagt-tttgcatcgtag-----tag--agcactatgatttgattcatctttacaaagttacaaacaagtagtgttttgagtt
| |||| |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||  ||||||||| |  || || || |||||||||||||||| | || || ||||| | |  |||   ||||| || | |     |||  || |  |  | ||| ||  |  ||    | |  ||| || ||| |  |       
ATGAGGAGAAGGAGTGGGTCGCCCAGGTGGAGCCCGGGGTGCTCATCACCTTCCTCTCGCTGCCGCGGGGCGGCAATGGTCTGAAGCGCATCCGATTCAGgtgaggtctt-gctctcatttgtgccaaacatttgcttcattgcttcataggtagaagcagaacttggttggtagttg-gtactcgcaa-caggtattagtgc-----

upper sequence: LOC_Os08g36020.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA09G07930.1 (Glycine max), 5'ss of exon 1
ACGAGGCGAAGGAGTGGGTCGCCCAGGTGGAGCCCGGCGTGCTCATCACCTTCCTCTCGCTGCCGGAGGGCGGCAACGACCTCAAACGGATCCGATTCAGgtgagttttttgcgctcatctctca--caagttttgcatcgtagtagagcactatgatttgattcatctttacaaagttacaaacaagtagt-gttttgagtt
| ||| ||||||||||||| || ||||| |||||||||||  | ||||||||| | ||||| ||    ||||| ||| | ||||||||||| ||||||||||  ||  |  ||     |   ||    || | ||   |  || | | |  | |  |||     |||||     | |||         |  | | | |   | 
AAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgctcggccaatgttaatcggttaattgttaatttttatttgcgggcaa--attcccaccatctcctgtatgttttttcttcttcttcgctgtatat-

upper sequence: LOC_Os08g36020.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv11s0016g01460.t01 (Vitis vinifera), 5'ss of exon 3
ACGAGGCGAAGGAGTGGGTCGCCCAGGTGGAGCCCGGCGTGCTCATCACCTTCCTCTCGCTGCCGGAGGGCGGCAACGACCTCAAACGGATCCGATTCAGgtgagttttt--tgcgctcatctctcacaagttttgcatcgtagtagagcactatgatttgattcatctttacaaagttacaaacaagtagtgttttgagtt
| ||| |||| |||||||| |||||||| |||||||||||||||||||||||| |||| || ||    || || ||||| ||||| || || || |||||||   | | |  | || |    | |||   || |||  | ||  || ||  || |   |   | |  | |      |||| |       |  ||||| ||  
ATGAGCCGAAAGAGTGGGTGGCCCAGGTCGAGCCCGGCGTGCTCATCACCTTCGTCTCCCTTCCCCGTGGAGGGAACGATCTCAAGCGCATTCGGTTCAGgtacttctgtcctccgattccatttcaacggtcttgatttgttttacagt-ctttacctgtttccgacgtatttccgtta-acttgttcaaggttttcagca

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|58677645|gb|CK066332.1|CK066332
EST:     TTCCTCTCGCTGCCGGAGGGCGGCAACGACCTCAAACGGATCCGATTCAG                         CCGTGAGATATTCAACAAATGGCAAGCGCAAAGATGGTGGGCCGAAAATTA
genomic: TTCCTCTCGCTGCCGGAGGGCGGCAACGACCTCAAACGGATCCGATTCAGgtgagttttt ... tgcatgatagCCGTGAGATATTCAACAAATGGCAAGCGCAAAGATGGTGGGCCGAAAATTA