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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATTACCGGAAGGATGATCCCTCTTCATTTAGCCTGCATTCAAATTTCTCATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggcatgcattttcaccctatgtactgaaaatgtttttgccccactaatactatcagattttatgttacag

Basic information

species Zea mays
transcript GRMZM2G045987_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G045987_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os11g24560.1 (Oryza sativa), 5'ss of exon 9
GGATTACCGGAAGGATGATCCCTCTTCATTTAGCCTGCATTCAAATTTCTCATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggcatgcattttcacccta--tgtactgaaaatgtttttgccccactaatactatcagattttatgttacag
|||||| |||||||||||||| |||||||||||| |||||||||||||||| ||||| |||||||||||||||||||| |||||||||||||||||||||||||  ||     | ||||     |   | |  | |  |  |  |||||  | |||||||| ||  ||   ||| ||||
GGATTATCGGAAGGATGATCCATCTTCATTTAGCTTGCATTCAAATTTCTCTTTGTTTCCTCAGTTTATGTTTAATCTACGGCGTTCACAATTTGTTCAGgtgatgtgttgcactttttttttttggttatctttaggaaatccttgccttattaatactagcattttccttgtcacag

upper sequence: GRMZM2G045987_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT1G05520.1 (Arabidopsis thaliana), 5'ss of exon 9
GGATTACCGGAAGGATGATCCCTCTTCATTTAGCCTGCATTCAAATTTCTCATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggcatgcattttcaccctatgtactgaaaatgt---ttttgccccactaatactatcagattttatgttacag
 ||||||||||||||||||||  |||||||||  ||  || |||| || ||| | ||||||||||||| ||| ||||| || || ||||| ||||| ||||| |||| |    | |||      | |||| | ||  | |   |||      ||| ||  | |  | |  ||| |  |||
TGATTACCGGAAGGATGATCCTGCTTCATTTACTCTAAATCCAAACTTTTCACTATTCCCTCAGTTTACGTTCAATCTCCGACGCTCACAGTTTGTGCAGgtaagcttg---acgtttgggaagt-tgtattaaatttatatctttaaatgtactcatggtgt--ggtgatat-tggcag

upper sequence: GRMZM2G045987_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv05s0062g00130.t01 (Vitis vinifera), 5'ss of exon 9
GGATTACCGGAAGGATGATCCCTCTTCATTTAGCCTGCATTCAAATTTCTCATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagct-ggcatgcattttcaccctatgtactgaaaatgtttttgccccactaatactatcagattttatgttacag-----------------
 ||||| || |||||||||||  | || ||||   |  |  |   ||| ||||||||||||||||||||||||||||| || || ||||||||||| ||||| |  | | ||||    |     || |    |  |     ||||  |     | |||||| |  || | |||   |                  
TGATTATCGAAAGGATGATCCAGCATCCTTTACATTAAACCCTTGTTTTTCATTGTTCCCTCAGTTTATGTTTAATCTGCGACGATCACAATTTGTACAGgtaattttgacatgtgactctcttcttttccttccag----ttttaacttctaattactataaatttatgtgtgttactatttttcttttggtag

upper sequence: GRMZM2G045987_T02 (Zea mays), 5'ss of exon 5
lower sequence: EFJ16499 (Selaginella moellendorffii), 5'ss of exon 8
GGATTACCGGAAGGATGATCCCTCTTCATTTAGCCTGCATTCAAATTTCTCATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggcatgcattttcaccctatgtactga----aaatgtttttgccccactaatactatcagattttatgttacag
 || || ||||| |||||| |    || ||  | |||   || ||  ||||  | || || ||||||||||||||||||||||| || |||||||||||||| ||    |   || || || | | ||| |       || || | ||  ||                             
TGACTATCGGAAAGATGATGCGAGCTCTTTCCGTCTGAGCTCTAAACTCTCGCTCTTTCCCCAGTTTATGTTTAATCTTCGGCGATCTCAATTTGTTCAGgttagtcaccccacacttgcatcatttgttcgtgtctcaagtgctgttttccag---------------------------

upper sequence: GRMZM2G045987_T02 (Zea mays), 5'ss of exon 5
lower sequence: EFJ32207 (Selaginella moellendorffii), 5'ss of exon 8
GGATTACCGGAAGGATGATCCCTCTTCATTTAGCCTGCATTCAAATTTCTCATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggcatgcattttcaccctatgtactga----aaatgtttttgccccactaatactatcagattttatgttacag
 || || ||||| |||||| |    || ||  | |||   || ||  ||||  | || || ||||||||||||||||||||||| || |||||||||||||| ||    |    | ||  | | | ||| |       || || | ||  ||                             
TGACTATCGGAAAGATGATGCGAGCTCTTTCCGTCTGAGCTCTAAACTCTCGCTCTTTCCCCAGTTTATGTTTAATCTTCGGCGATCTCAATTTGTTCAGgttagtcaccccatacttgtatcatttgttcgtgtctcaagtgctgttttccag---------------------------

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|32930551|gb|CF035363.1|CF035363
EST:     ATTGGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
genomic: ATTG-TTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
EST: gi|211107049|gb|FL352600.1|FL352600
EST:     CATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
genomic: CATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
EST: gi|211241496|gb|FL205970.1|FL205970
EST:     CACAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTNTCAGGATGTTACTCAA
genomic: CACAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATT-TCAGGATGTTACTCAA
EST: gi|32930555|gb|CF035367.1|CF035367
EST:     CATTGTTCCCTCAGTTTATATTTAATCTTCGGCGTTCACAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
genomic: CATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
EST: gi|211241495|gb|FL205969.1|FL205969
EST:     CACAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
genomic: CACAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
EST: gi|76911726|gb|DV164392.1|DV164392
EST:     CATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
genomic: CATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
EST: gi|37398581|gb|CF636605.1|CF636605
EST:     CAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
genomic: CAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
EST: gi|211370093|gb|FL332307.1|FL332307
EST:     CATTGKTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAG                         GTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT
genomic: CATTGTTCCCTCAGTTTATGTTTAATCTTCGGCGTTCACAATTTGTTCAGgtgagctggc ... tatgttacagGTTTTCAATAACAGTCCAGATGAGACAGCTTATTTCAGGATGTTACTCAAT