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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTACACTTGGTAGAGTTGTTGAATACAGGAGAATACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgcttgtttcaccttttaaaatgtatacattttttgtgaataaaagacattgtttatacttctagttatgtctattgcattatatctctgagtacattataatgtctctag

Basic information

species Oryza sativa
transcript LOC_Os12g01140.5
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g01140.5 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G001457_T02 (Zea mays), 5'ss of exon 13
TGTACACTTGGTAGAGTTGTTGAATACAGGAGAATACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgcttgtttcaccttttaaaatgtatacattttttgtgaataaaagacattgtttatacttctagttatgtctattgcattatatctctgagtacattataatgtctctag
||| |||||||| |||||| |    ||||| ||||||||||||||||||||||||||||||||  ||||||||||||| || ||||| |||     ||  ||  ||| |  |   |||   |||| ||             |  ||  | || || | || | |    |||   || | |        ||||||  ||||||
TGTCCACTTGGTGGAGTTGCTTGGCACAGGTGAATACTTTGCCATGAAAGCTATGGATAAAAGTGTCATGCTTAACCGAAACAAGgtatga-----gtaacaaatttgatcacaaataacattttagt-------------tacttccatttttaatgattttttccacatctgatttgt-------ctataatacctctag

upper sequence: LOC_Os12g01140.5 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv06s0004g03700.t01 (Vitis vinifera), 5'ss of exon 14
TGTACACTTGGTAGAGTTGTTGAATACAGGAGAATACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgcttgtttcaccttttaaaatgtatacattttttgtgaataaaagacattgtttatacttctagttatgtctattgcattatatctctgagtac-attataatgtctctag
||| ||  |||| || || |     || || |||||||||||||||||||||||||||||||   ||||||| |||||||| ||||| |     |    | |  ||      |   ||| ||| | || |||  |  |       ||  ||  |||  ||  ||||||  ||| || | ||| ||| |     |||       
TGTGCATCTGGTGGAATTATGTGGAACTGGTGAATACTTTGCCATGAAAGCTATGGATAAAAATGTCATGCTCAACCGCAACAAGgtat-----tcaaattaaattgctgggt---tacttttctagttaatttagca-gccagataagctcttaga-attcctattgt-ttacatgtatgactactacagctatg-------
















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|29670089|gb|CB666364.1|CB666364
EST:     ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAG                         GTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
genomic: ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgct ... atgtctctagGTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
EST: gi|29622723|gb|CB627734.1|CB627734
EST:     ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAG                         GTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
genomic: ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgct ... atgtctctagGTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
EST: gi|29672018|gb|CB668293.1|CB668293
EST:     ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAG                         GTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
genomic: ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgct ... atgtctctagGTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
EST: gi|87007902|gb|CI296880.1|CI296880
EST:     ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAG                         GTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
genomic: ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgct ... atgtctctagGTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
EST: gi|29613611|gb|CB618624.1|CB618624
EST:     ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAG                         GTTCACAGAGCTACTGCTGA
genomic: ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgct ... atgtctctagGTTCACAGAGCTACTGCTGA
EST: gi|27334351|gb|CA882802.1|CA882802
EST:     ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAG                         GTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
genomic: ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgct ... atgtctctagGTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
EST: gi|29641400|gb|CB646407.1|CB646407
EST:     ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAG                         GTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA
genomic: ACTTTGCCATGAAAGCTATGGATAAAAGCATCATGCTTAACCGCAATAAGgtttgatgct ... atgtctctagGTTCACAGAGCTACTGCTGAACGCCAAATCCTTGATCTATTAGATCACCCA