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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtattaatcataaataaatatatcaggtgtcaagtgactgtagacaaatgcaaagtagacatacttccctattgactgaacagtcttaatctttgcagGCTTTGCAATTAACAAAGTTTGATTATAGGCTCACTAGCGATCTTGATGAAGATTTGCAAAAGTTACGTTGCCGAGTAAATTTTCATGCTTTAAAATTTA

Basic information

species Zea mays
transcript GRMZM2G101181_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G101181_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g46570.1 (Oryza sativa), 3'ss of exon 5
---gtgtattaatcataaataaatatat-caggtgtcaagtgactgtagacaaatgcaaagtagacatacttccctattgactgaacagtcttaatctttgcagGCTTTGCAATTAACAAAGTTTGATTATAGGCTCACTAGCGATCTTGATGAAGATTTGCAAAAGTTACGTTGCCGAGTAAATTTTCATGCTTTAAAATTTA
       ||  ||   |||| | || |  |   |||  | ||   || || |  |  |||| | | |   || |||||  ||| |||||| ||||| |||||||||||||||  ||||||||||||||||| ||||||||| ||| ||||||||||| ||||| |||||||| |||||||||||||| ||||| |||| |||||
tggaaacatctatatgaaatcattagacacgtatgtggaatgctcgt-gatatgta-aaagcaaagaggtttgcctatgcacttaacagt-ttaat-tttgcagGCTTTGCAGCTAACAAAGTTTGATTATCGGCTCACTAACGAGCTTGATGAAGAATTGCAGAAGTTACGCTGCCGAGTAAATTTCCATGCATTAAGATTTA

upper sequence: GRMZM2G101181_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
--gtgtattaatcataaataaatatatcaggtgtcaagtgactgtagacaaatgcaaagtagacatacttccctattgactgaacagtctt----aatctttgcagGCTTTGCAATTAACAAAGTTTGATTATAGGCTCACTAGCGATCTTGATGAAGATTTGCAAAAGTTACGTTGCCGAGTAAATTTTCATGCTTTAAAATTTA
  ||   ||  |  | ||   | |  | | || |  | |   | |       || |   |  |  |  ||  | ||      |  | |  |    ||  |||||||| | | || || |||||||||||||| |||||  | |   |  ||||||||||  |||||||||| |||||||| || |||| ||||||||||| ||| |
atgtaacttggttttcaagctaga-gtgatgtatttattttttattt-----tgtaccttccaatttgttttcaatgaggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
















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|32805308|gb|CD957544.1|CD957544
EST:     TGCCTGAGTTTTATATTGATGAAGTTCTGCCAATACTCATGCGAAGGCGA                         GCTTTGCAATTA
genomic: TGCCTGAGTTTTATATTGATGAAGTTCTGCCAATACTCATGCGAAGGCGAgtaagtaacc ... atctttgcagGCTTTGCAATTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaatgcaaagtagacatacttccctattgactgaacagtcttaatctttgcagGCTTTGCAATTAACAAAGTTTGATTATAGGCTCACTAGCGATCTTGATGAAGATTTGCAAAAGTTACGTTGCCGAGTAAATTTTCATGCTTTAAAATTTA
                                              tctttgc  CT-rich tract
                                          ttaatcttt  TA-rich tract