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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGTTTGAGAGATGCTTCCAAATGAGATTTCCTGCCTGCTCGATTGCTGCAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtattcataaccaaatgtttctcttaacactgagcacatagttatgactctgtgattgacttgtattatatgaatatcaag

Basic information

species Oryza sativa
transcript LOC_Os05g46720.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g46720.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G355610_T01 (Zea mays), 5'ss of exon 5
GGAGTTTGAGAGATGCTTCCAAATGAGATTTCCTGCCTGCTCGATTGCTGCAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatg-tgtattc----ataaccaaatgtttctcttaacactgag---cacatagttatgactctgtgattgacttgta--ttatatgaatatcaag
||| |||||||| |||||||| |||||||||||||| ||||| ||||||||||||| || ||||||||| || ||| ||||| | || ||||||||||||||||| || |||     ||| | |||| ||  | || |||   |    |||||   || || |   || ||   |  |   || | || | || |||
GGAATTTGAGAGGTGCTTCCAGATGAGATTTCCTGCTTGCTCCATTGCTGCAAAAAAGCACATAGATTCGTCGACTTCTATTTTTGATGTGCAAGGCGTGgtatgctgcattatatgatagctaaatattgttgtttacatataaatccacattactaagaattaatgctttgttctttatttctttgtaaattaag

upper sequence: LOC_Os05g46720.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G174990_T02 (Zea mays), 5'ss of exon 5
GGAGTTTGAGAGATGCTTCCAAATGAGATTTCCTGCCTGCTCGATTGCTGCAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatg-tgtatt----cataaccaaatgtttctcttaacactgag---cacatagttatgactctgtgattgact-tgtattatatga-atatcaag
 || |||||||  |||||||| |||| |||||| || ||| | |||||||| |||| || ||||||||| || ||||||||| |||| ||||||||||||||||| || | |     ||| | || | ||  |||| |||   |    ||||| | || || |   |  ||   | | || |   ||  | ||||||
AGAATTTGAGAAGTGCTTCCAGATGAAATTTCCAGCTTGCACCATTGCTGCTAAAAAGCACATAGATTCGTCCACTACTATTTTGGATGTGCAAGGCGTGgtatgctgcactatattatagctaagtattgttctttacatataaagccacattgctaagagttaatactttgttctttacttcttggtaaatcaag
















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|29628429|gb|CB633440.1|CB633440
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
EST: gi|29636608|gb|CB641617.1|CB641617
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTTCTCAAA-GCTGCAAGGGATCTAATCACACGACTGCA
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTT-CTCAAAAGCTGCAAGGGATCTAATCACACGACTGCA
EST: gi|29623352|gb|CB628363.1|CB628363
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         NGTTTAAAGAACT
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACT
EST: gi|29624625|gb|CB629636.1|CB629636
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGGATCTAATCACACGACTGCA
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGG-ATCTAATCACACGACTGCA
EST: gi|29630847|gb|CB635856.1|CB635856
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
EST: gi|29628211|gb|CB633222.1|CB633222
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
EST: gi|33676922|gb|CF305161.1|CF305161
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
EST: gi|29628534|gb|CB633545.1|CB633545
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTG
EST: gi|29669409|gb|CB665684.1|CB665684
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
EST: gi|29665229|gb|CB661504.1|CB661504
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
EST: gi|29628535|gb|CB633546.1|CB633546
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
EST: gi|29640888|gb|CB645895.1|CB645895
EST:     CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTG                         GGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG
genomic: CAAAAAGGCCCATAGATTCATCTACTACTATTCTGGACGTGCAAGGCGTGgtatgtgtat ... gaatatcaagGGTTTAAAGAACTTCTCAAAAGCTGCAAGGGATCTAATCACACGACTGCAG