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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactccaacttccctccgaactgaacttttcgccatcggtcaggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag

Basic information

species Oryza sativa
transcript LOC_Os01g65660.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65660.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G096407_T03 (Zea mays), 5'ss of exon 2
TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactccaacttccctccgaactgaacttttcgccatcggtcaggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag
| ||||||| || ||||||||||||||||| ||||||||||||| ||||||||||||||||||||||| ||||| ||||| || ||||||||||||| |||||||||| ||||| | | |||| || | | ||| | | || || | || || || | |
TCGCAGGTCCCAGGGAGGTGTTCATGTGCGGGGTCGCGCAGTACGTGAACCTGTGGGGCACCATGGTCGGGTACACCATCACGGCGACCATAAGCATGGCgtgagtaacc----agatc---ctattttcctcccaagccagga----cgctctagctcgttctctgacatgtc-catgcgccgcgcgcgccag----------------

upper sequence: LOC_Os01g65660.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G096407_T01 (Zea mays), 5'ss of exon 3
TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactccaacttccctccgaactgaacttttcgccatcggtcaggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag
|||| || ||||||||||||||||| ||||||||||||| ||||||||||||||||||||||| ||||| ||||| || ||||||||||||| |||||||||| ||||| | | |||| || | | ||| | | || || | || || || | |
------GTCCCAGGGAGGTGTTCATGTGCGGGGTCGCGCAGTACGTGAACCTGTGGGGCACCATGGTCGGGTACACCATCACGGCGACCATAAGCATGGCgtgagtaacc----agatc---ctattttcctcccaagccagga----cgctctagctcgttctctgacatgtc-catgcgccgcgcgcgccag----------------

upper sequence: LOC_Os01g65660.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G830545_T03 (Zea mays), 5'ss of exon 3
TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactcc------aacttccctccgaac-tg-aacttttcgccatcggt---caggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag-----------------
|||| || ||||||||||||||||| |||||||||||||| |||||||||||||||||||| || ||||| ||||| || ||||||||||||| || ||||||| || | ||| || ||||| | | | || || | | |||| |||| | | || | | | | ||||| | ||| |||| |
------GTCCCAGGGAGGTGTTCATGTGCGGGATCGCGCAGTACGTGAACCTGTGGGGCACCATGGTTGGGTACACCATCACGGCGACCATAAGCATGGCgtaagtaaccaaaaaccctactttcctccgaatctccctgcaagcatgcaatacgatacgaccggtgcccaggacgttctaatttttgtttcccttttttttctgccgacctgttctgttcatgtgcgcgccgcgcag

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|88436502|gb|CI691223.1|CI691223
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
EST: gi|88451924|gb|CI694702.1|CI694702
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
EST: gi|88582065|gb|CI699295.1|CI699295
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
EST: gi|88382775|gb|CI682667.1|CI682667
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC