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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGACATGATGACAAGAAGGTGACGATTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaactgaagcatgctttgacgtatgccagaagtgtgcccttctgatacaatttcttaattgtttgattagtcccatggatttcattatgcatagcaacttcttatgttttatttggattgaggaagaaaatcttgatcatttcag

Basic information

species Oryza sativa
transcript LOC_Os04g41910.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g41910.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G084716_T01 (Zea mays), 5'ss of exon 10
GTGGACATGATGACAAGAAGGTGACGATTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaactgaagcatgctttgacgtatgcca-gaagtgtgcccttctgat-----acaatttct----taattgtttg---attagtcc--------------catggatttcattatgcatagcaacttc--ttatgttttatttggattgaggaagaaaatcttgatcatttcag
|||| ||||| || |||||| ||| |||| |  ||||||| ||||| ||||| ||||||||||||| |||  || ||||||||| |||||  |||||| ||||  | |    || ||||  ||| ||||     |||  |  |    || ||| |||   ||| || |               |||   |||||  | ||||||| |||   ||  ||| |  |||||||      || ||| |    ||      
GTGGGCATGACGATAAGAAGCTGATGATTCCTGCTACAGTAATTTTAAGGCACATGTTCACTCCTGTTGAGCTGAGAgtaagtagctgaaatatgctt-gacgcctcctgcaaaatgtgttcttttgatctaagacagctcttgttgtacttggttgcccattggttcattcaggttgctcatatgaggttcatgcttcatagcagctttattttcgttcttattggattctcaccgataatatcccgcag-----

upper sequence: LOC_Os04g41910.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G353114_T01 (Zea mays), 5'ss of exon 12
GTGGACATGATGACAAGAAGGTGACGATTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaactgaagcatgctttgacgtatgcca-gaagtgtgcccttctgat-----acaatttct----taattgtttg-----------------attagtcccatggatttcattatgcatagcaacttc--ttatgttttatttggattgaggaagaaaatcttgatcatttcag
|||| ||||| || |||||| ||| |||| |  ||||||| ||||| ||||| |||||||||||||||||  || ||||||||| |||||  |||||| ||||  | |    || ||||  ||| ||||     |||  |  |    || ||| |||                  ||  ||  |||   |||||  | ||||||| |||   ||  ||| |   ||||||      || ||| |    ||      
GTGGGCATGACGATAAGAAGCTGATGATTCCTGCTACAGTAATTTTAAGGCACATGTTCACTCCTGCTGAGCTGAGAgtaagtagctgaaatatgctt-gacgcctcctgcaaaatgtgttcttttgatctgagacagctcttgttgtacttggttgcccattggatcattcaggttgctcatatgaggttcatgcttcatagcagctttattttcgttcttactggattctcaccgataatatcccgcag-----

upper sequence: LOC_Os04g41910.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G074351_T01 (Zea mays), 5'ss of exon 10
GTGGACATGATGACAAGAAGGTGACGATTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaactgaagcatgctttgacgtatgccagaa-gtgtgcccttctgat-----acaattt-----cttaattg-------------tttgattagtcccatggatt--tcattatgcatagcaacttc--ttatgttttatttggattgaggaagaaaatcttgatcatttcag
|||| |||||||| |||||| ||| |||| | |||||||| ||||| ||||| ||||||||||||||||| ||  ||||||||| |||||  |||||| | ||  | |   ||  ||||| ||| ||||     |||  |      ||| ||||             |  ||||  || ||||   |  ||||| | || ||||||||   ||   || |  ||||||| |  || || ||| |  |||      
GTGGGCATGATGATAAGAAGCTGATGATTCCTACTACAGTAATTTTAAGGCACATGTTCACTCCTGCTGAGTTAAGAgtaagtagctgaaatatgctt-ggcgcctcctgcaatatgtgctcttttgatctgagacagctcttgtacttgattgcacattagatcattcagattgttcacatgaggtgttcattcttcagagcaactttattttcattcttattggattaaccaataatatcct--tcag-----

upper sequence: LOC_Os04g41910.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G171660_T02 (Zea mays), 5'ss of exon 10
GTGGACATGATGACAAGAAGGTGACGATTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaactgaagcatgctttgacgtatgccagaa-gtgtgcccttctgatacaa-----------tttcttaattgtttga-----------------ttagtcccatggatttcattatgcatagcaacttc--ttatgttttatttggattgaggaagaaaatcttgatcatttcag
|||| ||||| || |||||| ||| |||| |  ||||||| ||||| ||||| |||||||||||||||||  || ||||||||| |||||  |||||| ||||  | |   ||  ||||  ||| ||||   |           |||  || ||| |||                  ||  ||  ||||  |||| | | ||||||| |||   ||   || |   ||||||      || ||| |    ||      
GTGGGCATGACGATAAGAAGCTGATGATTCCTGCTACAGTAATTTTAAGGCACATGTTCACTCCTGCTGAGCTGAGAgtaagtagctgaaatatgctt-gacgcctcctgcaatatgtgttcttttgatctgagacagctcttgttttgtacttggttggccattggatcattcaggttgctcagatggggttcactcttcatagcagctttattttcattcttactggattctcaccgataatatcccgcag-----

upper sequence: LOC_Os04g41910.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G411893_T01 (Zea mays), 5'ss of exon 9
GTGGACATGATGACAAGAAGGTGACGATTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaactgaagcatgctttgacgtatgcca-gaagtgtgcccttctgatacaatttcttaattgtt-tgattagtcccatggatttcattatgcatagcaacttcttatgttttatttggattgaggaagaaaatcttgatcatttcag
|||| ||||| || |||||| ||| |||| |  ||||||| ||||| ||||| |||||||||||||||||  || ||||||||| |||||  |||||| ||||  | |    || ||||  ||| ||||   |        ||||| |  || ||  |    |||  || || ||                                                      
GTGGGCATGACGATAAGAAGCTGATGATTCCTGCTACAGTAATTTTAAGGCACATGTTCACTCCTGCTGAGCTGAGAgtaagtagctgaaatatgctt-gacgcctcctgcaaaatgtgttcttttgatctgagacagcccttgttgtacttggttgccc--attggatcattcag-----------------------------------------------------

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|58592254|gb|CF990562.1|CF990562
EST:     TTACAACTACAGTTATATTGAGGCATATGTTCACTCCTGCTGAATTGCGA                         GCCGATGAAACTCTTCTTCC
genomic: TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaact ... atcatttcagGCCGATGAAACTCTTCTTCC
EST: gi|29616209|gb|CB621221.1|CB621221
EST:     TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGA                         GCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTCAGAGAAGAATGC
genomic: TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaact ... atcatttcagGCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTTAGAGAAGAATGC
EST: gi|29636734|gb|CB641743.1|CB641743
EST:     TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGA                         GCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTTAGAGAAGAATGC
genomic: TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaact ... atcatttcagGCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTTAGAGAAGAATGC
EST: gi|27549049|gb|CA766863.2|CA766863
EST:     TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGA                         GCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTCAGAGAAGAATGC
genomic: TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaact ... atcatttcagGCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTTAGAGAAGAATGC
EST: gi|29676261|gb|CB672536.1|CB672536
EST:     TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGA                         GCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTTAGAGAAGAATGC
genomic: TTACAACTACAGTTATTTTGAGGCATATGTTCACTCCTGCTGAATTGCGAgtaagtaact ... atcatttcagGCCGATGAAACTCTTCTTCCCGAGCTTGAGGCAGATGTTAGAGAAGAATGC