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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaactgagttaatatttagattagattgctagtctgttcgtatagttattttttctttgctgttttatatattttgtggtctgttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG

Basic information

species Zea mays
transcript GRMZM2G079308_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079308_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os06g39520.2 (Oryza sativa), 3'ss of exon 5
gtaagtaac-tgagttaatatttagattaga--ttgctagtctgttcgtatagttattttttctttgctgttttatatattttgtggtctgttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG-------------------------------
||||||    ||   | |||   |||||| |  || | ||| |         |    |||||||||  | ||||| || || |   ||||   | |||||||| || ||||| || |||||||| || |||||||| ||||| ||||||||||| | |||||| || |||                               
gtaagttttgtggaattataca-agattacagtttacaagtatacaaaatgtgcatgtttttctttcattttttacatcttcttctgtct-cataatgcagCCACGATGGGCCGACCTTGATATCAATCAGCATGTTAATAACGTTAAATACATAGGGTGGATCCTAGAGGTAAAAAAAGTTCCCCTATTATGTTCATCTT
















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|211198985|gb|FL379479.1|FL379479
EST:     CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
EST: gi|148944069|gb|EC889154.2|EC889154
EST:     AGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: AGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
EST: gi|211076640|gb|FL394059.1|FL394059
EST:     CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACT                         CCTCGTTGGGCCGATCTTGATATAAACCAGCATGTC
genomic: CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTC
EST: gi|89759410|gb|DY688253.1|DY688253
EST:     ACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: ACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
EST: gi|32867853|gb|CF007535.1|CF007535
EST:     CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
EST: gi|32870399|gb|CF010081.1|CF010081
EST:     CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
EST: gi|7227656|gb|AW566297.1|AW566297
EST:     CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
EST: gi|6012678|gb|AW062115.1|AW062115
EST:     CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: CAGAGGGTCAAAGCACTTCTGCAGCTAAATATGTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
EST: gi|6022624|gb|AW067436.1|AW067436
EST:     GTGAGGACAGGCCTGACT                         CCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC
genomic: GTGAGGACAGGCCTGACTgtaagtaact ... ttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtatagttattttttctttgctgttttatatattttgtggtctgttttatgcagCCTCGTTGGGCTGATCTTGATATAAACCAGCATGTCAATAATGTTAAATACATTGCGTGGATTCTTGAG
                                         tctgtttt  CT-rich tract
       ttattttttctttgct  TA-rich tract