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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCATGGCGGAGCTCGAGCGGCTGAATATGTCAAGCAGCACCTTTTCAGCAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcattaataattcatgcattacggagcaaaaataattgtagccaacctaaaaggtggttgtgatttctctgtacttttcttgcag

Basic information

species Oryza sativa
transcript LOC_Os02g05630.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g05630.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G166035_T02 (Zea mays), 5'ss of exon 3
GCCATGGCGGAGCTCGAGCGGCTGAATATGTCAAGCAGCACCTTTTCAGCAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatg---gcattaataattcatgcattacggagcaaaaataattgta-gccaacctaaaaggtggttgtgatttctctgtacttttcttgcag
| || || ||||   |||| ||||| || || |||||||| ||||||||||||||||| || || ||||||||||||| ||||| |||| ||||||| ||||||     | |||  ||| | |  ||  |      | |      || |     ||  |       |    ||| | | |  ||||  |||||
GTCACGGAGGAGTCAGAGCAGCTGAGTACGTTAAGCAGCATCTTTTCAGCAATTTAATCAAACACCCAAAGTTCATCACTGATACCAAGGCCGCTATTGgtatgctcatactaactattgaggacttttgacttctacactgacatatgatggtcttgatatc--ctcccgtttttttttttttttgctgcag

upper sequence: LOC_Os02g05630.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 2
GCCATGGCGGAGCTCGAGCGGCTGAATATGTCAAGCAGCACCTTTTCAGCAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcattaataattcatgcattacggagcaaaaataattgtagccaacctaaaaggtggttgtgatttctctgtacttttcttgcag---
| ||||| ||||  ||||| ||||| ||||| |||||||||||||||||||||||||| || || ||||||||||||| ||||| |||| | ||||||||||      || ||  | |   |||   ||      |    |  |   |    | | |||| |  ||||  |  |||| | || |||| |   
GTCATGGAGGAGTCCGAGCAGCTGAGTATGTTAAGCAGCACCTTTTCAGCAATTTAATCAAACACCCAAAGTTCATCACTGATACCAAGGCTGCTATCGgtactttcatattagcttaactattgtagacttttgacttgtacactgag---atatggtgatcttgatacccttgtattatttttgctgcag

upper sequence: LOC_Os02g05630.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0008g07320.t01 (Vitis vinifera), 5'ss of exon 4
GCCATGGCGGAGCTCGAGCGGCTGAATATGTCAAGCAGCACCTTTTCAGCAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatg----------gcattaataattcatgcattacggagcaaaaataattgtagccaacctaaaaggtg--gttgtgatttctctgtacttttcttgcag
| ||||| || |||||||| ||||||||||| || ||  ||||||| || ||||| || | |||||||||||||||   |||||  || || ||||| ||| ||          |    | ||||     | ||    |||    || |  ||   ||  |||||   |   ||  | | || ||    || | | |||||
GTCATGGAGGTGCTCGAGCAGCTGAATATGTTAAACAAAACCTTTTTAGTAATTTGATCAGGCATCCAAAGTTCATTTCTGATACAAAATCAGCTATAGgtttgtttcctgactgtgccagtaatgt-cactttctatagcctgtatgaa-gtgttcactctaaatactactgtcttaaattatcct--ctgtacatgcag

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|5003494|gb|AU068643.1|AU068643
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|5803440|gb|AI978410.1|AI978410
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CNGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|29668036|gb|CB664311.1|CB664311
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|29639786|gb|CB644795.1|CB644795
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|58670044|gb|CK058730.1|CK058730
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|29666851|gb|CB663126.1|CB663126
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|29688008|gb|CB684283.1|CB684283
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|33680351|gb|CF308590.1|CF308590
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|33675133|gb|CF303372.1|CF303372
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|29686520|gb|CB682795.1|CB682795
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCATAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|218495837|gb|FG960245.1|FG960245
EST:     AATTTAATTAATGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: AATTTAATTAA-GCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|44671917|gb|CR285351.1|CR285351
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|29640127|gb|CB645136.1|CB645136
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
EST: gi|29662047|gb|CB658322.1|CB658322
EST:     CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCG                         CTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC
genomic: CAATTTAATTAAGCATCCAAAGTTCATCAGTGATATCAAGTCCGCTATCGgtatggcatt ... tttcttgcagCTGAAACGTACAACCATACAGATTCAGAATTTCTGAAAGCCGAAAGTAGTC