Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCTGCTCCCAGTGCTAGTTCAACACAAGATATTTTTATTGGGCAGCTTGGTGGGTTAATTTCAACTACCATTGAGCATGTTATTGCTCCTGATGTCAGgtattgcttgaaagttaccgtttggatcacagttgctttatcatctgacaaagttaattggtaattccattaatcaaatgattgtctaaagtattcactt...

Basic information

species Oryza sativa
transcript LOC_Os03g19690.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g19690.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G135968_T01 (Zea mays), 5'ss of exon 6
TTGCTGCTCCCAGTGCTAGTTCAACACAAGATATTTTTATTGGGCAGCTTGGTGGGTTAATTTCAACTACCATTGAGCATGTTATTGCTCCTGATGTCAGgtattgcttgaaagt-----tacc--gtttggatcacagttgctttatcatctgacaaagttaattggtaattccattaatcaaa--tgattgtctaaagtattcactt
||||||| || |||||||||||||| ||||||||||| ||||||||||| || ||   |||| ||||||||||||||||||| || ||||||||| | |||||||    ||||||     ||||  | ||   ||| |||| ||| || || |||  ||         |  |   | || |  |   ||||||  | |||         
TTGCTGCCCCAAGTGCTAGTTCAACGCAAGATATTTTCATTGGGCAGCTCGGAGGTGCAATTGCAACTACCATTGAGCATGTGATAGCTCCTGATATAAGgtattttcagaaagtagaaataccttgcttcattcaaagtttcttcattatttgatgaatgactgaaatggtcggaatattttatcttgattggatgaag---------

upper sequence: LOC_Os03g19690.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AT4G16180.2 (Arabidopsis thaliana), 5'ss of exon 6
TTGCTGCTCCCAGTGCTAGTTCAACACAAGATATTTTTATTGGGCAGCTTGGTGGGTTAATTTCAACTACCATTGAGCATGTTATTGCTCCTGATGTCAGgtattgcttgaaagttaccgtttggatcacagttgctttatcatctgacaaagttaattggtaattccattaatcaaatgattgtctaaagtattcactt----
||    ||    ||  |   || || || ||||| |||  ||| ||| | |  | |||  |  | ||||| ||||||||||| || ||||||||||||||||| |  |   | || |   |||   ||             | |||  ||| |  ||||      |  | | || || |    ||  |  ||  | ||||    
TTAGCCCTGTTGGTCATCAGTCTACCCATGATATCTTTTCTGGTCAGTTAGCAGCGTTGGTAGCTACTACAATTGAGCATGTCATAGCTCCTGATGTCAGgtaata-tgatatgtgagactttacgtc-------------cttctagcaatgaaaatta--tgcttaaatgattaattctgagtgcattgtgctaacttctag
















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|25800195|gb|CA756156.1|CA756156
EST:     GGTGGGTTAATTTCAACTACCATTGAGCATGTTATTGCTCCTGATGTCAG                         GTTTGAAACTGTTGACATGGCAATGAGGTTACTTGTACCTATAATTGTGCT
genomic: GGTGGGTTAATTTCAACTACCATTGAGCATGTTATTGCTCCTGATGTCAGgtattgcttg ... ccaaattcagGTTTGAAACTGTTGACATGGCAATGAGGTTACTTGTACCTATAATTGTGCT
EST: gi|427961|gb|D24106.1|D24106
EST:     GGTGGGTTAATTTCAACTACCATTGAGCATGTTATTGCTCCTGATGTCAG                         GTTTGAAACTGTTGACATGGCAATGAGGTTACTTGTACCTATAATTNTNCT
genomic: GGTGGGTTAATTTCAACTACCATTGAGCATGTTATTGCTCCTGATGTCAGgtattgcttg ... ccaaattcagGTTTGAAACTGTTGACATGGCAATGAGGTTACTTGTACCTATAATTGTGCT