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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATAAATTTGTATCTTGAGCTGCTGAAAGAGAGGGAACTGAGAGAACCTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttctgtttctataattcagtttccctgatacttcctccgtttcatattagaagactttttagcattgcccacattcatatatatgttaatgaat...

Basic information

species Oryza sativa
transcript LOC_Os01g25370.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g25370.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G088653_T01 (Zea mays), 5'ss of exon 4
GTCATAAATTTGTATCTTGAGCTGCTGAAAGAGAGGGAACTGAGAGAACCTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttctgtttctataattcagtttccctg-atacttcctccgt-ttcatattagaagactttttagcattgcccacattcatatatatgttaatgaat
|  || |||||||||||||| || || ||||| |||||||| |||||||||  || ||| || ||||| || |||||||| |||||||||||||| |||||  |  |  |    | |  | |  |||    | | | ||| |   | || || ||       || | |  | |  | |   ||||  | ||||  || |  
GCTATCAATTTGTATCTTGATCTTCTTAAAGAAAGGGAACTAAGAGAACCTTGCAGGTTCTTAAAATGTCATTTCTTCAACACCTTTTTCTACAAGAAGgtttgtgttagaacttgttttaccttttggtgggacaattcttttttatttatttttccttgattctaaaaactagc-attctcatcca-atgtgcatcata

upper sequence: LOC_Os01g25370.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G012601_T02 (Zea mays), 5'ss of exon 4
GTCATAAATTTGTATCTTGAGCTGCTGAAAGAGAGGGAACTGAGAGAACCTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttctgtttctataattcagtttccctgat--acttcctccgtttcatattagaagactttttagcattgcccacattcatatatatgttaatgaat
|| || |||||||||||||| ||||| |||||||||||||| |||||||||  |||||| || |||||||| |||||||| |||||||||||||| |||||  |  |  |  | | |  | |  ||||   |    | |   |    || || ||      ||| | || |    |||   ||||  | ||||  ||||| 
GTTATCAATTTGTATCTTGATCTGCTTAAAGAGAGGGAACTAAGAGAACCTCGCAAGTTCTTAAAATGCCATTTCTTCAACACCTTTTTCTACAAGAAGgtttgtgttagaatttgttttaccttttcgtgggccaattcttttttgtttatttttccttgcttctaagaaactaccattctcat-caaatgtacatgaa-

upper sequence: LOC_Os01g25370.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA17G03010.2 (Glycine max), 5'ss of exon 4
GTCATAAATTTGTATCTTGAGCTGCTGAAAGAGAGGGAACTGAGAGAACCTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttctgtttctataattcagtttccctgatacttcctccgtttcatattagaagactttttagcattgcccacattcatatatatgttaatgaat-------
|| |||||| |||| |||||  ||||||||||||||||    ||||||||    |||||| |||| || || || |||||||||||||||||||||||||| |     || || ||  || |   |   ||||    | ||    | || | |     |  | |   |  |||     ||  |  || |  |   | ||       
GTAATAAATATGTACCTTGAATTGCTGAAAGAGAGGGAGAGAAGAGAACCACTGAAGTTTCTGAACTGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtaa---catgcttttactatccgcatgaactgaatagtgct----tgcacactcatgcagctgtccactgtgctttttttttttaatcttctggggcatgtttcgt

upper sequence: LOC_Os01g25370.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA15G15890.1 (Glycine max), 5'ss of exon 5
GTCATAAATTTGTATCTTGAGCTGCTGAAAGAGAGGGAACTGAGAGAACCTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttctgtttc-tataattcagtttccctgatacttcct--ccgtttcatatt-agaagactttttagcattgcccacattcatatatatgttaatgaat
|| ||||||||||| || ||  |||| || |||||||| |  ||||||||    || ||| ||||||| || || ||||||||||||||||||||||||||    | |   |||  ||||||   |     |||   |      || || ||   | ||| || |  | | |||||   |           || ||  |    
GTTATAAATTTGTACCTGGAATTGCTTAAGGAGAGGGAGCAAAGAGAACCACTGAAATTTCTGAAATGTCATTTTTTCAATACCTTTTTCTACAAAAAGgtagaataccccttcacataattatttagtgttgactttgaaaaaccattccaccctcagatgattgataaccattgttaaggagaggggccattttcct----

upper sequence: LOC_Os01g25370.3 (Oryza sativa), 5'ss of exon 4
lower sequence: AT4G15880.1 (Arabidopsis thaliana), 5'ss of exon 4
GTCATAAATTTGTATCTTGAGCTGCTGAAAGAGAGGGAACTGAGAGAACCTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttctgtttctataattcagtttcc--ctgatacttcctccgtttcatattagaagactttt-tagcattgcccacattcatatatatgttaatgaat
|| || ||| | || ||||| || || ||||| || |||   ||||| || || |||| |||||| || |||| |||||||||||||||||||||||||||  | ||   ||    | |     |||    |  | | ||  ||| |||    | |    | ||     |  | ||    | |    |  ||   ||||   
GTTATCAATGTCTACCTTGAACTACTCAAAGAAAGAGAAACTAGAGAGCCCAAAAAGTATTTGAAGTGTCACTACTTCAATACCTTTTTCTACAAAAAGgtttgttttctttctgctcagatgatttttaacaaaaatttgatcctttttgcctcatgtcagttcgactgagtagctgctacttgcttccataaaaatg---

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|428598|gb|D24750.1|D24750
EST:     CTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAG                         CTCATTACTGGTGGGTATGATTATAAGTCTGTCAGAAGNTGGGCAACTAAA
genomic: CTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttct ... ctgtgatcagCTCATTACTGGTGGGTATGATTATAAGTCTGTCAGAAGATGGACAACTAAA
EST: gi|426920|gb|D22996.1|D22996
EST:     CTTTTTCTACAAAAAG                         CTCATTACTGGTGGGTATGATTATAAGTCTGTCAGAAGATGGACAACTAAA
genomic: CTTTTTCTACAAAAAGgtcagcttct ... ctgtgatcagCTCATTACTGGTGGGTATGATTATAAGTCTGTCAGAAGATGGACAACTAAA
EST: gi|218488315|gb|FG953540.1|FG953540
EST:     CTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAG                         CTCATTACTGGTGGGTATGATTATAAGTCTGTCAGAAGATGGACAACTAAA
genomic: CTAACAAGTTTTTGAAATGCCACTTCTTCAATACCTTTTTCTACAAAAAGgtcagcttct ... ctgtgatcagCTCATTACTGGTGGGTATGATTATAAGTCTGTCAGAAGATGGACAACTAAA