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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatattctccaacacaatttttgttatttatctgctgtcattattgttgcttgttttccattttgagtctaactacatgatgccacttgttgatagGGGTTTCTCTACATTCCATGCATTGGTTGCAGCTGTTGTTTCTTTTTACCTGGTTGTGATATCTGACCTCTTCCATAGCAACATAATAATTGATAGAAAC

Basic information

species Oryza sativa
transcript LOC_Os01g60120.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g60120.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G021589_T02 (Zea mays), 3'ss of exon 3
-----------------------------gtaagat-attctccaacacaatttttgttatttatctgctgtcattattgttgct-----tgttttccattttg---agtctaactacatgatgccacttgttgatagGGGTTTCTCTACATTCCATGCATTGGTTGCAGCTGTTGTTTCTTTTTACCTGGTTGTGATATCTGACCTCTTCCATAGCAACATAATAATTGATAGAAAC
                              ||   | ||| | |   | | |||| | | |   | || | |  ||  |  | ||     ||  ||    ||||   | ||| | || || ||||||| | ||| |||||||||||||||| ||||||||||||| || ||||  |||||||| ||||||||  |||| |||||||||||| ||    |       | |   | ||  
gtgagatatgtgtcgacacaacattttagatacttttatttttcttaatatttttggctttagttttgttcttttttcttcttctggaaatggctttagctttgtttaatctgattatataatgccacgtattggtagGGGTTTCTCTACACTCCATGCATTGGTAGCTGCTGCCGTTTCTTTCTACCTGGTCATGATCTCTGACCTCTTCAATGAAGATGCGCACAATAGCATAATA
















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|87023693|gb|CI286444.1|CI286444
EST:     AAGGGTTATGACAATATAAGCCCAATGAAAAAGGTTGAATGGAATAATAG                         GGGTTTCTCTACATTCCATGCATTGGTTGCAGCTGTTGTTTCTTTTTACCT
genomic: AAGGGTTATGACAATATAAGCCCAATGAAAAAGGTTGAATGGAATAATAGgtaagatatt ... ttgttgatagGGGTTTCTCTACATTCCATGCATTGGTTGCAGCTGTTGTTTCTTTTTACCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgttgcttgttttccattttgagtctaactacatgatgccacttgttgatagGGGTTTCTCTACATTCCATGCATTGGTTGCAGCTGTTGTTTCTTTTTACCTGGTTGTGATATCTGACCTCTTCCATAGCAACATAATAATTGATAGAAAC
                         gtctaac  putative branch site (score: 2)
         ttgtttt  TA-rich tract