Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttcttgcatgctattctgttccttacttgtatttgtattgtcctatgttctgcttctgcatgcttcatttcattgtttttttcccttttttca...

Basic information

species Oryza sativa
transcript LOC_Os03g42900.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g42900.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G417223_T01 (Zea mays), 5'ss of exon 7
AACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttcttgcatgctattctgttccttacttgtatttgtattgtcctatgttctgcttctgcatgcttcattt--catt--gtttttttcccttttttca-------
||||||||||||||| || |||||||||||||| || |||||||| || ||||||| ||| | |||| ||||||| |||||||| ||||| ||  ||||||||  |||||   | | | |||          |||        |       | |||   | | |  ||||| |  ||    ||  | |  |||  |  ||||||       
AACAGTAACTATTCAAGAGAGCAGAGGTGCACCCGGAGAGATGACCGTGGAGATAACTGGGACTGCAGCCCAAGTTCAAACTGCGCAGCAGCTGATCCAGgtaccttttccgccgt-ccattgcaccatggtcttaacgaaagacgaaagcacgtttcacctttcgatgctccccttgctgttaagctaattttgcccttttcacttgcag

upper sequence: LOC_Os03g42900.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA19G43540.1 (Glycine max), 5'ss of exon 6
AACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttcttgcatgctattctgttccttacttgtatttgtattgtcctatgttctgcttctgcatgcttcatttcattgtttttttcccttttttca---------
 || || || || || |||   |||||||  |||||||||||||||||||| || | ||| | ||| || ||||||||||| || ||||||||| | |||||| ||| |  | | || | || |  ||  |  |   |  | |    ||||    |  | | |||||||| |  ||| | | ||||||   || |  | |         
TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgta-attctgat-cttggttttttaatcaat-ttaaaaacttttcaatcct----taagatgctgcatgcct--tttaaatattttttcaactgtagttaaacttgttt

upper sequence: LOC_Os03g42900.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA03G40840.1 (Glycine max), 5'ss of exon 6
AACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttcttgcatgctattctgttccttacttgtatttgtattgtcctatgttctgcttctgcatgcttcatttcattgtttttttcccttttttca--------
 || || || || || |||   |||||||  |||||||||||||||||||| || | ||| | ||| || ||||||||||| || ||||||||| | |||||| ||  |  | | || | ||||  ||   | ||| | |  | |    |  |    ||   ||||||| ||  ||| | | ||  | |    || ||||        
TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgta-atactgat-cttggttttctaatca--atttgaaatcttttcaatccgtaagatg---ctgcatgtttt-ttttaatcttaatatgaaattattcagttaaaat

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|66919597|gb|CX106445.1|CX106445
EST:     AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAG                         AATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
genomic: AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttc ... ttgcttgcagAATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
EST: gi|86845371|gb|CI340439.1|CI340439
EST:     AGATAATT-GTAGTGCATCCCAAGTCCAAACTGCCCAGCAAGTAGTCCAC                         AATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGGTTCTAACCCT
genomic: AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttc ... ttgcttgcagAATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
EST: gi|88265961|gb|CI376863.1|CI376863
EST:     GTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAG                         AATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
genomic: GTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttc ... ttgcttgcagAATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
EST: gi|88252304|gb|CI350732.1|CI350732
EST:     AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAAGTAGTCCAG                         AATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
genomic: AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttc ... ttgcttgcagAATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
EST: gi|3766837|gb|AU030947.1|AU030947
EST:     AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAG                         AATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
genomic: AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttc ... ttgcttgcagAATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
EST: gi|86887668|gb|CI311951.1|CI311951
EST:     AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAG                         AATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
genomic: AGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttc ... ttgcttgcagAATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
EST: gi|88273252|gb|CI388708.1|CI388708
EST:     CATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAG                         AATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT
genomic: CATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttc ... ttgcttgcagAATTTCATGGCAGAAGCTCCTCAGGGCCCTCCTCCGCCAGCTTCTAACCCT