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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattgtcacctgatacattgctctctatgtccgacaaacaacaaaagcaacaataaacaccatcaatttgctttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTCTAATTGGTGTCTTAAGTACTGATCAATCTCGGACCGATGATGAGTTGTT

Basic information

species Oryza sativa
transcript LOC_Os02g47850.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 6
---------------------------------------------gtaagtattgtcacctgatacattgctctctatgtc-cgac--aaaca-acaaaagcaacaataaa-----------caccatcaatttgctttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTCTAATTGGTGTCTTAAGTACTGATCAATCTCGGACCGATGATGAGTTGTT
                                             ||||||  |   | || | |  |  |||||| | || ||||  |  || ||    |||||||  ||           ||||||  |||| | || |   ||||||||||||| ||||| || |||||||| |||||| |||||||||||||||| ||||||||||| ||||||||||| |||| ||| ||  ||||||||||
gtaagtgatagaacctaacatctctctctaacatcatgggagtatgtaagtgatagaagctaacatctctctctctctctcacgactcagtcacacgtgtgcaacaaagaattatttaaattcaccatggatttacatttttgacagATGATGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGATGGTAGTCTTATTGGTGTCTTGAGTACTGATCAGTCTCTGACAGACAATGAGTTGTT

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 5
------------------------------------------------------------------------gtaagtattgtcacctgatacattgctctctatgtccg-acaaacaacaaaagcaacaataaacaccatcaatttgctttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTCTAATTGGTGTCTTAAGTACTGATCAATCTCGGACCGATGATGAGTTGTT
                                                                         |  ||  | |     ||  ||  |           ||     | |||| ||  |   | |  || |||  ||||   || |   ||||||| ||||| ||||| || |||||||| |||||| ||||||| || ||||| ||||||||||| ||||||||||| |||| ||| ||  ||||||||||
gtaagtgatagaagctaacacctctctctctctcccccccctccctctcgctatccctgtggctctccctttctctgttgtatgtgtggactcaccgactcaggcacacgtgtgcaaaacagaattatttaaattcatcatggatttatgtttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTCTTATTGGTGTCTTGAGTACTGATCAGTCTCAGACAGACAATGAGTTGTT
















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|58690939|gb|CK079626.1|CK079626
EST:     CACAGAAACACTTGAAGAGTATCTGATGAAGAGAAACATTATGGGAATAT                         ATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTC
genomic: CACAGAAACACTTGAAGAGTATCTGATGAAGAGAAACATTATGGGAATATgtaagtattg ... ttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTC
EST: gi|29682715|gb|CB678990.1|CB678990
EST:     CACAGAAACACTTGAAGAGTATCTGATGAAGAGAAACATTATGGGAATAT                         ATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTC
genomic: CACAGAAACACTTGAAGAGTATCTGATGAAGAGAAACATTATGGGAATATgtaagtattg ... ttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTC
EST: gi|218483317|gb|FG958109.1|FG958109
EST:     CACAGAAACACTTGAAGAGTATCTGATGAAGAGAAACATTATGGGAATAT                         ATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTC
genomic: CACAGAAACACTTGAAGAGTATCTGATGAAGAGAAACATTATGGGAATATgtaagtattg ... ttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtccgacaaacaacaaaagcaacaataaacaccatcaatttgctttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTCTAATTGGTGTCTTAAGTACTGATCAATCTCGGACCGATGATGAGTTGTT
                                       tttgcttt  CT-rich tract
                                     aatttgctttatat  TA-rich tract