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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGCTTGATCTTTGAATATGTTAACAACACAGATTTCAAAGTGCTGTACCCAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctcatatttttgttacatctgtcactctgtgtaaacagctggtatattttcttctttaaagaagtctttgtaaccagtgtttgacaaggcggc...

Basic information

species Zea mays
transcript GRMZM2G143602_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G143602_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g02350.1 (Oryza sativa), 5'ss of exon 3
CAGCTTGATCTTTGAATATGTTAACAACACAGATTTCAAAGTGCTGTACCCAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGg-----taaattctcatatttttgttacatctgtcactctgtgtaaacagctggt-atattttcttctttaaagaagtctttgtaaccagtgtttgacaaggcggc
 |||||||| ||||||||||| ||||||||||||||||||||||| ||||||||  | |||||||||||||| || ||||| ||||||||| |||| ||||     |   ||||||  |||||||||| | |  || |      ||  | ||  | ||       | ||  |     || || |        |   |         
AAGCTTGATATTTGAATATGTCAACAACACAGATTTCAAAGTGCTATACCCAACCCTGACAGATTATGACATCCGTTATTATATCTACGAGCTACTGAAGgttttattctttctcaattttttgttac-tgtaacattgccaacaagaaactacttattcagcacttttccagagtatcgttcttgttgaaatgaaatctt-----

upper sequence: GRMZM2G143602_T03 (Zea mays), 5'ss of exon 3
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 5'ss of exon 4
CAGCTTGATCTTTGAATATGTTAACAACACAGATTTCAAAGTGCTGTACCCAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctcatatttttgttacatctgtcactctgtgt--aaacagctggtatattttcttctttaaagaagtctttgtaaccagtgtttgacaaggcggc
|||  | || ||||| ||||| |||||||| |||||||||||||| ||||| ||| | ||||| | ||||||||| || |||||  | ||| |||||||||| | |  |  | ||  | ||   |||   |   || ||  | |||| | | | | |  | | | | |    | ||| |  | |  | ||            
CAGTCTTATATTTGAGTATGTGAACAACACGGATTTCAAAGTGCTCTACCCTACACTGACAGACTTTGACATTCGTTACTACATTCATGAGCTACTCAAGgtgagtaatttttttcatcttttttcttaaagcttgggtcgacacagattggagactcacgtttctgagtgtgactt-gctatctatattcatttttatct-
















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|19822196|gb|BQ048220.1|BQ048220
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|23199704|gb|BU582269.1|BU582269
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|60343609|gb|DN210582.1|DN210582
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|21389960|gb|BQ528009.1|BQ528009
EST:     TGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: TGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|148979084|gb|EE026504.2|EE026504
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|13388534|gb|BG462212.1|BG462212
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|29576768|gb|CB616880.1|CB616880
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|60340369|gb|DN207342.1|DN207342
EST:     CAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|20507676|gb|BQ279725.1|BQ279725
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAG
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAG
EST: gi|211466861|gb|FL187159.1|FL187159
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|87156472|gb|DY401261.1|DY401261
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|71770653|gb|DR968590.1|DR968590
EST:     CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: CAACATTAACAGATTATGACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
EST: gi|60395745|gb|DN228615.1|DN228615
EST:     ACATTCGGTATTACATCTACGAGTTACTCAAG                         GCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC
genomic: ACATTCGGTATTACATCTACGAGTTACTCAAGgtaaattctc ... ggatatacagGCATTAGATTACTGCCATTCACAAGGTATTATGCACCGAGATGTGAAGCCC