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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttgatatcactgttgatgaacttcttgatgcatatatgtaatctgctgctcgcatctcctgcctctttttttttttgacacttaataaacatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATTTCATTTACAAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCG

Basic information

species Oryza sativa
transcript LOC_Os02g40030.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g40030.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G020976_T01 (Zea mays), 3'ss of exon 2
--atttgatatcactgttgatga-acttcttgatgcatatatgtaatctgctgctcgcatctcctgcctctttttttttttgacacttaataaacatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATTTCATTTACAAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCG
    ||   ||  ||||||   | |||||||| |  | || |||| |||| || | |  | |     ||| ||| ||  || |||||||| ||||||||||||||||||||||| ||  ||||||||||||||||||| ||| ||||||| || || || |||||||| || ||||| |||||||||||| |  ||||||| |
tgcctttggatgtctgttggctacacttcttggtttacatttgtattctgttgtttgtgtattt---ctcatttcttcgttaacacttaacaaacatgtgcagATGGTGTGCTCCACGTGCCTTCTTTATGTTCTGAGACGGTTAAAGATCATCTCCTTCACAAATAGTGATCCATCAGTGCCTTCTGATTCACTATTCTTTG

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G133226_T02 (Zea mays), 3'ss of exon 2
-atttgata-tcactgttgatgaacttcttgatgcatatatgtaatctgctgctcgcatctcctgcctctttttttttttgacacttaataaacatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATTTCATTTACAAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCG
 || |  |  |  ||||||   ||  |  |  || | || |||| |||     | |  | |  |  |||  || ||| || |||||||| ||||||||||||||||||||||||||  ||||||||||||||||||| ||  ||||||| || || || || ||||| || ||||| |||||||||||| |  ||||||| |
aatcttctggttgctgttggctaaacttctagtgtacatttgtattctatcatttgtgtttttt--ctcccttctttgttaacacttaacaaacatgtgcagATGGTGTGCTCAACGTGCCTTCTTTATGTTCTGAGACGATTAAAGATCATCTCCTTCACTAATAGTGATCCATCAGTGCCTTCTGATTCACTATTCTTTG

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 2
atttgatatcactgttgatgaacttcttgatgcatatatgtaatctgctgctcgcatctcctgcctctttttttttttgacacttaataaacatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATTTCATTTACAAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCG-----------------------------------------------------------
                                                                                                            ||||||  ||||||||||||||||||| ||  ||||||| || || || || ||||| || ||||| |||||||||||| |  ||||||| |                                                           
------------------------------------------------------------------------------------------------------------ctcaacgtgccttctttatgttctgagacgattaaagatcatctccttcactaatagtgatccatcagtgccttctgattcactattctttgtgccgtttAGGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G133226_T01 (Zea mays), 3'ss of exon 2
atttgatatcactgttgatgaacttcttgatgcatatatgtaatctgctgctcgcatctcctgcctctttttttttttgacacttaataaacatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATTTCATTTACAAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCG-----------------------------------------------------------
                                                                                                              ||||  ||||||||||||||||||| ||  ||||||| || || || || ||||| || ||||| |||||||||||| |  ||||||| |                                                           
--------------------------------------------------------------------------------------------------------------caacgtgccttctttatgttctgagacgattaaagatcatctccttcactaatagtgatccatcagtgccttctgattcactattctttgtgccgtttagGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG

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|88422800|gb|CI573962.1|CI573962
EST:     CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAG                         ATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
genomic: CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctca ... acatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
EST: gi|58667565|gb|CK056251.1|CK056251
EST:     CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAG                         ATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
genomic: CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctca ... acatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
EST: gi|88422801|gb|CI573963.1|CI573963
EST:     CACTGTCTTCATATAATTTACCCTGTGCAAATGTTATTAGGCTCCTTCAG                         ATGGTGTGCTCAAAAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
genomic: CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctca ... acatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgctcgcatctcctgcctctttttttttttgacacttaataaacatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATTTCATTTACAAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCG
                      tttttttttttgacac  TA-rich tract