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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAGATCCTTCAAATCGTATAGGTTCAAATGCTGGTGCAAATGACATCAAGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaatgtttcgagcatcaagacatttcgacaaagatagtttgtttagtgcatcactgattatctaaataactatatgtgcag

Basic information

species Oryza sativa
transcript LOC_Os04g23890.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g23890.1 (Oryza sativa), 5'ss of exon 21
lower sequence: GRMZM2G032351_T01 (Zea mays), 5'ss of exon 20
GAGAGATCCTTCAAATCGTATAGGTTCAAATGCTGGTGCAAATGACATCAAGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaatgtttcgagcatcaagacatttcgacaaagatagtttgtttagtgcatcactgattatctaaataactat--atgtgcag
||||||||| ||   |||  | ||||||| ||||| |||||| || |||||||||||| |||||||| |||| ||  | ||||||||||| |||||||||||  | || |  ||  |||| |    | | |         |    ||| || |  ||||||| || |   | |||||| |  ||||||||
GAGAGATCCCTCTTCTCGACTTGGTTCAAGTGCTGCTGCAAACGATATCAAGCAACATCCCTTTTTTGAAGATATACACTGGCCACTCATCCGTTGCATGgtgatctggaaatt--gagcctttgaagaatatcttgggtagtaattgcttggcacatcactaataaagaacataactttgcatgtgcag

upper sequence: LOC_Os04g23890.1 (Oryza sativa), 5'ss of exon 21
lower sequence: GLYMA16G19560.1 (Glycine max), 5'ss of exon 23
GAGAGATCCTTCAAATCGTATAGGTTCAAATGCTGGTGCAAATGACATCAAGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgta-----ctttgaatgtttcgagcatcaagacatttcgacaaagatagtttgtttagtgcatcactgattatctaaataactatatgtgcag----------
 ||||| ||  ||| ||||||||||||||   ||||||| ||||| |||||||||||| | ||||| |  |  ||||||||||| || || ||   |||||||     |||   || | |   | |   || ||||  || ||| || |  |       | |  |   ||||       ||  ||| || |||          
AAGAGACCCAACAAGTCGTATAGGTTCAACCACTGGTGCCAATGAAATCAAGCAACATCCTTTTTTCCGTGGAATCAATTGGCCTCTTATCCGCAACATGgtaatattcttgtgatttcttttgaagtcagtcatta-gaaaaatattgactaccgtaagtaataa-aattagtccttcaaagatacgt-cagtcattttagg

upper sequence: LOC_Os04g23890.1 (Oryza sativa), 5'ss of exon 21
lower sequence: PP1S17_314V6.1 (Physcomitrella patens), 5'ss of exon 19
GAGAGATCCTTCAAATCGTATAGGTTCAAATGCTGGTGCAAATGACATCAAGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaatgtttcga-gcatcaagaca--tttcg-------acaaagatagtttgtttagtgcatcactgattatctaaataactatatgtgcag--
                 |  | || ||   |  |||||||| |||||||||| | ||| | || |||||||||||||||||||| || |||||   |||||||  |  ||  ||   | || ||   |||  | |||       ||    ||| |||| ||        | ||  |     | |||  || ||    |  
----------------AGACTTGGGTCTCGTCGTGGTGCAAGTGACATCAAGAACCATCCATTCTTTCAAGACATCAATTGGCCTCTTATACGCAACATGgtatgtgcaagtttctaatgcttccttacagatctcgtgtcattactctcataatttgcttgaatacgaagtgcgtgcggtagtaaacatttgcttcgct

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|88531053|gb|CI459492.1|CI459492
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|86481914|gb|CI124547.1|CI124547
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|38478618|gb|CF962751.1|CF962751
EST:     AGCGACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29613428|gb|CB618441.1|CB618441
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29618974|gb|CB623986.1|CB623986
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29612811|gb|CB617824.1|CB617824
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|25806004|gb|CA761965.1|CA761965
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29618297|gb|CB623309.1|CB623309
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29626656|gb|CB631667.1|CB631667
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29619193|gb|CB624205.1|CB624205
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29620201|gb|CB625213.1|CB625213
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29630592|gb|CB635601.1|CB635601
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29615866|gb|CB620878.1|CB620878
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29679663|gb|CB675938.1|CB675938
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29685421|gb|CB681696.1|CB681696
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|88253359|gb|CI351985.1|CI351985
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29646470|gb|CB651477.1|CB651477
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|88906896|gb|CI375968.1|CI375968
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|86861209|gb|CI326647.1|CI326647
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|38480878|gb|CF964967.1|CF964967
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29685192|gb|CB681467.1|CB681467
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|86903055|gb|CI324525.1|CI324525
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
EST: gi|29619194|gb|CB624206.1|CB624206
EST:     AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATG                         AGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA
genomic: AGCAACATTCCTTTTTTCAAGACATCAATTGGCCACTCATACGTTGCATGgtactttgaa ... atatgtgcagAGCCCCCCTGAACTAGATGTTCCTCTGAAACTAATTGGCAAGGAAACTCAA