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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatctagatttatttagtatgcaactaatacatcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCATATCATTCCATTTTATCAG

Basic information

species Oryza sativa
transcript LOC_Os02g31290.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 2
gtgatctagatttatttagtatgcaactaata-catcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCATATCATTCCATTTTATCAG
            ||  | | ||  |||| ||| | |  |||| ||| |||    |||| ||  ||   ||||| |||| |||     || |||||||||| || || ||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||||||
-----------gtagattgaatttaactcataaccttgtattagttgagacta-cttgtctgctcatgttactaaatgagat-caatctccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G459746_T01 (Zea mays), 3'ss of exon 12
--------gtgatctagatttatttagtatgcaactaatacatcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCATATCATTCCATTTTATCAG
            | |  |||||  |  || || ||     | |  |||| ||| |||     ||   |  ||   ||||| |||| |||     || |||||||||| || || ||||| ||||||||||||||||| ||||||||| ||||||||||||||||||||||||||
gtagtttgaaactttgaatttaactcataagcgaccggggccttgtattagttgagactacttt-tgtgttcatgttactaaatgagat-caatctccttttcagAATAAATGTAATGTTGGCTATGCTTTCATCAACATGACCAATGCTCAGCATATCATTCCATTTTATCAG

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 12
lower sequence: AT5G61960.2 (Arabidopsis thaliana), 3'ss of exon 11
--------gtgatctagatttatttagtatgcaa--ctaatacatcatatttgttcagatagtcttgcctaatcg-aattactgaatgggatgt-gtcctact-tttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCATATCATTCCATTTTATCAG
        | |  |||  ||| ||   || | ||  || ||  | || |   ||  || |  |  |   |      ||  |   |||   || |   |||    ||||||||||| |||||||| || ||||||||||||||| | |   | ||| |  | ||  | ||||||| | ||
gcaagcaggcgtcctaccttttttatataagaaagtcttattaagcagacacgtagaggttttggtattttgcaataacgatctaatctaatcttaccctgtcatttcagAACAAATGCAATGTGGGATATGCTTTCATCAATCTTATTGAACCTGAAAAGATTGTCCCATTTTTTAAG

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|58687890|gb|CK076577.1|CK076577
EST:     AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|58691922|gb|CK080609.1|CK080609
EST:     AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAG                         AATAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|58657140|gb|CK045820.1|CK045820
EST:     AAATCATAAAGGGACTTATGATTTTATTTACCTACGGAGTGGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAATCATAAAGGGACTTATGATTTTATTTACCTAC-CAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|56158059|gb|C72031.2|C72031
EST:     AAAATCATAAAGGGACTTATGATTTTNTTTACCTACCAATTGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|66930475|gb|CX117323.1|CX117323
EST:     AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCATATCATTCCATTTTATCAG
              gcctaat  putative branch site (score: 3)
                                          tcctacttttc  putative PPT
                       aattact  TA-rich tract