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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGGAAGCTGGGGGAGGGCTCGCCAAGACGCTGCAGCTGGGGGCGCTTTTCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgagctgactgacgggaaaaaaacactgatgtctctccctgtccctctgttgtgtgtgtgtgtgatgcgcgggcactagtgattcggttctgatccact...

Basic information

species Zea mays
transcript GRMZM2G047404_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047404_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os09g12600.2 (Oryza sativa), 5'ss of exon 1
AGAGGAAGCTGGGGGAGGGCTCGCCAAGACGCTGCAGCTGGGGGCGCTTTTCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgagctgactgacgggaaaaaaacactgatgtctctc-cctgtccctctgttgtgtgtgtgtgtgatgcgcgggcactagtgattcggttc---tgatccact
 | ||| |  || ||||||||||| |||||||||||||| || ||||| |||||||| |||||||||||||||||||||||||||||||||||||||||||||||  | ||          |  || ||  ||| |     || |      ||| | | |  |  ||||      || | | ||||   | |   |||| |  |
GGCGGAGGAGGGTGGAGGGCTCGCGAAGACGCTGCAGCTCGGCGCGCTCTTCGGGCTGTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgaggcggctt-taactttgatccattgccgtcgccaatttggcggagatttgggggagactaggatgttt---catttgggatttattacatgtgattctgt

upper sequence: GRMZM2G047404_T02 (Zea mays), 5'ss of exon 1
lower sequence: EFJ27053 (Selaginella moellendorffii), 5'ss of exon 1
AGAGGAAGCTGGGGGAGGGCTCGCCAAGACGCTGCAGCTGGGGGCGCTTTTCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtga-gctgactgacgggaaaaaaacactgatgtctctccc-tgtccctctgttgtgtgtgtgtgtgatgcgcgggcactagtgattcggttctgatccact
  | ||| | ||  | | | |       || || ||||||||  |||| |||||  | |||||||||||||||||||||||||||||||| ||||||||||    | |   |  ||         | |     |  ||    | | |   |||| | |   ||  || | |      |||||   ||  | | |    ||  
GCAAGAATCCGGCAGCGCGATGATGCGCACACTCCAGCTGGGATCGCTCTTCGGATTGTGGTACCTCTTCAACATCTACTTCAACATCTATAACAAGCAGgcattgtttcttctcgttttcttttctccaccttagctaggatcttctcttgttttctccatgcatgctactttctaactagaacttgtgattt--ctcag-

upper sequence: GRMZM2G047404_T02 (Zea mays), 5'ss of exon 1
lower sequence: EFJ05868 (Selaginella moellendorffii), 5'ss of exon 1
AGAGGAAGCTGGGGGAGGGCTCGCCAAGACGCTGCAGCTGGGGGCGCTTTTCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtga-gctgactgacgggaaaaaaacactgatgtctctccc-tgtccctctgttgtgtgtgtgtgtgatgcgcgggcactagtgattcggttctgatccact
  | ||| | ||  | | | |       ||||| ||||||||  |||| |||||  | |||||||||||||||||||||||||||||||| ||||||||||    | |   |  ||         | |     |  ||    | |     |||| | |   ||  || | |      |||||  | |   |||| |      
GCAAGAATCCGGCAGCGCGATGATGCGCACGCTCCAGCTGGGATCGCTCTTCGGATTGTGGTACCTCTTCAACATCTACTTCAACATCTATAACAAGCAGgcattgtttcttctcgttttcttttctccaccatagctaggatcttttcttgttttctccatgcatgctactttctaactag-aacttatttctcag-----

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|22521317|gb|BU080128.1|BU080128
EST:     TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAG                         GTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
genomic: TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgagctgac ... tgctctacagGTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
EST: gi|88746767|gb|DY530908.1|DY530908
EST:     TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAG                         GTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
genomic: TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgagctgac ... tgctctacagGTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
EST: gi|21891481|gb|BQ744694.1|BQ744694
EST:     TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAG                         GTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
genomic: TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgagctgac ... tgctctacagGTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
EST: gi|87156219|gb|DY401008.1|DY401008
EST:     TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAG                         GTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
genomic: TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgagctgac ... tgctctacagGTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
EST: gi|26559240|gb|CA831475.1|CA831475
EST:     TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAG                         GTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT
genomic: TCGGGCTCTGGTACCTCTTCAACATCTACTTCAACATCTACAACAAGCAGgtgagctgac ... tgctctacagGTTCTGAAGGTTTTGCCATACCCTATAAACATCACAACGGTGCAGTTTGCT