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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGACTGATGGATACTTCATCAAAAGTGGCATTGTCACTGTGATCAAGGACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataaggttctctcaaattctcatatttattctatttagagcgtttggacatcaccaattcaccatgaaatgggaagcgtcttttattttccctctt...

Basic information

species Oryza sativa
transcript LOC_Os09g12660.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g12660.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 9
GGAGACTGATGGATACTTCATCAAAAGTGGCATTGTCACTGTGATCAAGGACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataaggt----tctct--caaa--------ttctcatatttattctatttagagcgtttggacatcaccaattcaccatgaaatgggaagcgtcttttattttccctctt
       || ||||| || ||||||||||| |||||||| ||||| || || || ||||| ||||| |||||| |||||||||| || |||| ||||| |||| |||||||    |||||  || |        || | ||  || |  || |   | | |  ||  |  | |  ||   | | | || | ||  |  ||    || |      
-------GAAGGATATTTTATCAAAAGTGGAATTGTCACGGTGATTAAAGATGCTTTAATTCCTAGTGGAACAATCATATAAAGTCAGCCAA-CACCA-TGTATATAAGgtcatatctctagcagaaaccagtgtttttatggttgtcgtactcgta-catagggttactagcttttgctcttcatattgcaactggattaagcttactg----
















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|86858990|gb|CI275175.1|CI275175
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|86496727|gb|CI139360.1|CI139360
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|87009864|gb|CI277365.1|CI277365
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|88222446|gb|CI222402.1|CI222402
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|88222920|gb|CI220666.1|CI220666
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|87018057|gb|CI275871.1|CI275871
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|89164207|gb|CI101295.1|CI101295
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|88967313|gb|CI002497.1|CI002497
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|58683758|gb|CK072445.1|CK072445
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|88957454|gb|CI095395.1|CI095395
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|29675781|gb|CB672056.1|CB672056
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|86494922|gb|CI137555.1|CI137555
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|218485015|gb|FG946141.1|FG946141
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|86504993|gb|CI147626.1|CI147626
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGCCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G-CC-TTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|87010148|gb|CI279245.1|CI279245
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|86500004|gb|CI142637.1|CI142637
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|86504994|gb|CI147627.1|CI147627
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGCCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G-CC-TTGCAGCATATGGTGATCTGATCTCCAGTGCACA
EST: gi|86500640|gb|CI143273.1|CI143273
EST:     ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACT                         GTACATAAGGTTGGGCCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA
genomic: ACGCCTTAATCCCTAGCGGAACAGTCATATAAAGGCAACCAATCACCACTgtacataagg ... tgtaatgcagGT---T--GG--G--CCTTGCAGCATATGGTGATCTGATCTCCAGTGCACA