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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATAGTACCTTTGCATCCCCAATCAATCAGAAGGCACTAACTCTAGGTGCTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgtttggaccaaacttcctgtactcattacacatatagattgccttgacaagaatattttgttttttag

Basic information

species Oryza sativa
transcript LOC_Os03g25940.4
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g25940.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G075153_T04 (Zea mays), 5'ss of exon 7
TGATAGTACCTTTGCATCCCCAATCAATCAGAAGGCACTAACTCTAGGTGCTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgtttggaccaaacttcctgtactcattacacatatagatt-gccttgacaagaatattttgttttttag--------
                               |||||| ||||| ||||||||||| ||||||| ||||| ||||| |||||||||||||| ||||||||||| |||   |  ||  || | | | | ||||||| |  | |  ||| ||  | |||||| ||||   |  || |         
-------------------------------AAGGCATTAACTTTAGGTGCTGACCTAGTTATTCATTCTGCAACGAAGTACATTGCTGGACACAATGATgtgagttggtatactgaaatccat-ttctcattaaagctgtgtatttgcactaacaagagtattcgatacttcaatttcccag

upper sequence: LOC_Os03g25940.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G075153_T02 (Zea mays), 5'ss of exon 6
TGATAGTACCTTTGCATCCCCAATCAATCAGAAGGCACTAACTCTAGGTGCTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgtttggaccaaacttcctgtactcattacacatatagatt-gccttgacaagaatattttgttttttag--------
||| ||||| || || || || ||||||||||||||| ||||| ||||||||||| ||||||| ||||| ||||| |||||||||||||| ||||||||||| |||   |  ||  || | | | | ||||||| |  | |  ||| ||  | |||||| ||||   |  || |         
TGACAGTACTTTCGCGTCACCTATCAATCAGAAGGCATTAACTTTAGGTGCTGACCTAGTTATTCATTCTGCAACGAAGTACATTGCTGGACACAATGATgtgagttggtatactgaaatccat-ttctcattaaagctgtgtatttgcactaacaagagtattcgatacttcaatttcccag

upper sequence: LOC_Os03g25940.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G113873_T02 (Zea mays), 5'ss of exon 6
TGATAGTACCTTTGCATCCCCAATCAATCAGAAGGCACTAACTCTAGGTGCTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgtttggaccaaacttc--ctgtactcattacacatat--------agattgccttgacaagaatattttgttttttag
 || ||||| ||||| ||||| ||||||||||||||||| ||| |||| |||||| ||||||| ||||| |||||||||||||||||||| ||||| ||||| |||   |  ||  |||  |  ||   ||||||| |  |||        | |||||  | || || |  ||    ||   ||
CGACAGTACTTTTGCCTCCCCTATCAATCAGAAGGCACTGACTTTAGGCGCTGACCTAGTTATTCATTCTGCAACAAAGTACATTGCTGGACACAACGATgtgagttgatatactgaaccccatctcccctcattaaagttatgtgtttgcacattgcactaactagtac-ttcaacttcccag

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|58694049|gb|CK082736.1|CK082736
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|12622757|gb|AU172970.1|AU172970
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29625314|gb|CB630325.1|CB630325
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCANAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29673041|gb|CB669316.1|CB669316
EST:     GTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: GTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29614913|gb|CB619926.1|CB619926
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|38478380|gb|CF962513.1|CF962513
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATCGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29660677|gb|CB656952.1|CB656952
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|58612841|gb|CK040553.1|CK040553
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTCTTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|58695584|gb|CK084271.1|CK084271
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29645224|gb|CB650231.1|CB650231
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29625315|gb|CB630326.1|CB630326
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|58596991|gb|CK007519.1|CK007519
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCGGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|58612205|gb|CK039917.1|CK039917
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCA
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCA
EST: gi|29614165|gb|CB619178.1|CB619178
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCCAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|218484474|gb|FG954293.1|FG954293
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|428295|gb|D24443.1|D24443
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|88397733|gb|CI684672.1|CI684672
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29639161|gb|CB644170.1|CB644170
EST:     AGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: AGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29614166|gb|CB619179.1|CB619179
EST:     AGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: AGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
EST: gi|29660676|gb|CB656951.1|CB656951
EST:     CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGAT                         GTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC
genomic: CTGACTTAGTTATCCATTCAGCAACAAAGTACATTGCTGGGCACAATGATgtaagtgttt ... tgttttttagGTTATTGGAGGCTGCATCAGTGGCAGAGATGAGCTAGTTTCCAAAGTCCGC