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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCTCCATCAAGTCATCAGAGCGAACGATGACCTCACCCCGGAGCACTACCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaactactgataatccccaattccccaagaacctacttgaccaccattaaacacatagttctgttgatttatcaattaacatggaattctagcttattctctgataaatcatctatattggcacag

Basic information

species Oryza sativa
transcript LOC_Os06g49430.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49430.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G135904_T01 (Zea mays), 5'ss of exon 2
GATCTCCATCAAGTCATCAGAGCGAACGATGACCTCACCCCGGAGCACTACCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagc---ttaactactgataatccccaattccccaaga-acctacttgaccaccat-taaacacatagttctgttg--atttatcaattaacatggaattctagcttattctc-tgataaatcatctatattggcacag--------------------
|||||||||||||| ||||| ||||| |||||||||||||| || ||  ||||||||||||||||||||||||| || |||||||||||||| ||||| ||||||    ||| ||| |   || | |    | || |    |  |||     ||   | || |    |    ||||||   || |||   |  |||||   ||||| || || |  ||||| || ||    ||  || |                      
GATCTCCATCAAGTGATCAGGGCGAATGATGACCTCACCCCTGAACATCACCAGTTTTTCCTGTACCAACTTCTTCGAGCTCTCAAGTACATACATGCCGgtaagtatattagctagtaccaaccacatggtacctatcccatgtaccaaggcagtttatatatttgtcagactgttgtggttcatctgct--catggttatctagtttgttgttatgatatattatgataatgtgctccttgcggtctatattggtgcag

upper sequence: LOC_Os06g49430.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G306028_T02 (Zea mays), 5'ss of exon 2
GATCTCCATCAAGTCATCAGAGCGAACGATGACCTCACCCCGGAGCACTACCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagc---ttaactactgataatccc-caattccccaagaaccta-cttgaccaccattaaacacat---agttctgttgatttatcaattaacatggaattctagcttattctc-tgataa----------atcatctatattggcacag
|||||||||||||| ||||  || || |||||||||||||| || ||  ||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||    |||| || |   || | | || | ||     || ||| |  |||     ||  |    |   | |  ||| |  | |||  ||  |||||   || || ||||| |    ||||          ||  ||||||  ||  |||
GATCTCCATCAAGTGATCAAGGCCAATGATGACCTCACCCCTGAACATCACCAGTTTTTCCTGTACCAACTTCTTCGTGCTCTCAAGTACATCCATGCTGgtaagtatattaattagtaccaaccacacagtacctatccaatctagcaagacagtttttgtatttgtcaaattgttgtgggctcatctgtt--catggttatccagtttattattacaataatgtgatctttatgttctataccggtgcag

upper sequence: LOC_Os06g49430.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ26549 (Selaginella moellendorffii), 5'ss of exon 2
GATCTCCATCAAGTCATCAGAGCGAACGATGACCTCACCCCGGAGCACTACCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaactactgataatccccaattccccaagaacctacttgaccaccattaaacacatagttctgttgatttatcaattaacatggaattctagcttattctctgataaatcatctatattggcacag
|| ||||| ||||| |||| ||| |||||||| ||||  || |||||||||||||||||||| |||||  | || || |   | |||| ||||||  | |||| | ||  ||       |      |||  |   |||  |  ||  || |   |        ||                                                                    
GACCTCCACCAAGTGATCAAAGCCAACGATGATCTCATGCCCGAGCACTACCAGTTTTTCCTCTACCAGTTGCTACGAGGGTTGAAGTTCATCCACACGGgtatgattttctctcctcgagat--gattgtctctgaaattgttttccctcgcgtgtgt-tgcag--------------------------------------------------------------------

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|29645354|gb|CB650361.1|CB650361
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|29664602|gb|CB660877.1|CB660877
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|33795692|gb|CF323716.1|CF323716
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|58687543|gb|CK076230.1|CK076230
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|33676627|gb|CF304866.1|CF304866
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|58652759|gb|CK041439.1|CK041439
EST:     AGTTTTTCCTGTACCAACGTTCGTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: AGTTTTTCCTGTACCAAC-TTC-TCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|58663889|gb|CK052575.1|CK052575
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|58668308|gb|CK056994.1|CK056994
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|29633813|gb|CB638822.1|CB638822
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCC
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCC
EST: gi|33675107|gb|CF303346.1|CF303346
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|29632340|gb|CB637349.1|CB637349
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAA
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAA
EST: gi|66913253|gb|CX100101.1|CX100101
EST:     CCAGGTGTTCCTGTACCAACTTCTTCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|29627483|gb|CB632494.1|CB632494
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|33675390|gb|CF303629.1|CF303629
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
EST: gi|58668784|gb|CK057470.1|CK057470
EST:     CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAG                         CTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG
genomic: CCAGTTTTTCCTGTACCAACTTCTCCGTGCTCTCAAGTACATCCATGCAGgtaagcttaa ... attggcacagCTAATGTATTTCATCGCGATCTAAAGCCCAAGAATATACTGGCAAACTCAG