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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCCTCCCGGCCGCGCCATGGTGAGGCTCACCGCCGACCTGATATGGAAGAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgctctttcctccctgctcgctagatctagggtttagtgttcttggccctcttttttcattccctccgtctcggtagtttaatttgtctgttgtgtttcttttccttggcag

Basic information

species Oryza sativa
transcript LOC_Os02g13990.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g13990.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G021742_T01 (Zea mays), 5'ss of exon 1
CGCCCTCCCGGCCGCGCCATGGTGAGGCTCACCGCCGACCTGATATGGAAGAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgctct-ttcctccct--gctcgctagatctagggtttagtgttcttggccctcttttttcattccctccg----tctcggtagtttaatttgtctgttgtgtttcttttccttggcag
||||  | |     ||||||||| ||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||||||||| |||||||||||| | |||  ||||| |||   |  | |||||||||||||  ||||| ||  |         |||   ||   |    ||    |  |  || ||  |||  |                   
CGCCTCCTCCCAGTCGCCATGGTCAGGCTCACCGCTGACCTGATATGGAAGAGCCCGCACTTCTTCAACGCCGTCAAGGAGCGCGAGCTCGACCTCCGAGgtttgcccactcccttccttcctccacctgttagatctagggttatgtgttattctcttcgaaagctcacggcccttgctcttcctcctcctccaacttcgctgcag-------------------

upper sequence: LOC_Os02g13990.3 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv01s0150g00590.t01 (Vitis vinifera), 5'ss of exon 1
CGCCCTCCCGGCCGCGCCATGGTGAGGCTCACCGCCGACCTGATATGGAAGAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgctctttcctccctgc-tcgctagatctagggtttagtgttcttggccctcttttttcattccctccgtctcggtagtttaatttgtctgttgtgtttcttttccttggcag
 | |  ||       |  |||||||||||||| || |||||||| ||||| ||||| || |||||||| ||| ||| ||| || ||  | ||  | |||||| | |  |  || |||  | | | |  ||| || |         | ||||   |  || ||   |    |   ||   |  ||||| | ||     |  ||                  
TGGCTGCCGAAGAAAGAGATGGTGAGGCTCACTGCAGACCTGATTTGGAAAAGCCCTCATTTCTTCAATGCCATCAGGGAGCGAGAATTGGATCTTCGAGgtattccagtcctgtcccgctttcatttctacattt-----cctctattctaatcattccttcccccaaactaacggaaccctagttcacttcacacgaagttac---------------
















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|218492413|gb|FG947005.1|FG947005
EST:     GAGCCCGCACTTCTTCAACGCCGTCAATGACCGCGAGCTCTACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|29681478|gb|CB677753.1|CB677753
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|86904173|gb|CI306591.1|CI306591
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|88406774|gb|CI603968.1|CI603968
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|88445434|gb|CI584547.1|CI584547
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|86891922|gb|CI310086.1|CI310086
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|58602112|gb|CK012640.1|CK012640
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|88745945|gb|CI769305.1|CI769305
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|88740329|gb|CI763837.1|CI763837
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|88400407|gb|CI593482.1|CI593482
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|38473912|gb|CF958044.1|CF958044
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|58662231|gb|CK050911.1|CK050911
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
EST: gi|5005008|gb|AU068325.1|AU068325
EST:     GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAG                         GTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG
genomic: GAGCCCGCACTTCTTCAACGCCGTCAAGGACCGCGAGCTCGACATCCGAGgtttgcgcgc ... tccttggcagGTAACAAGATCCCCATCATCGAGAATCTGGGCGCCACCGAG