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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgagagggttttctgctgagtgtttgcaacaatatgctaatttttgcccttcagtaaataaattgctgaatctatttctgttctttgtcacctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTAAAGCTTTTGATCGCAAGGGTCACATTGCAAAACTGTGCTTAGTTTTTCT

Basic information

species Zea mays
transcript GRMZM2G447433_T09
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os08g27040.1 (Oryza sativa), 3'ss of exon 6
tgagagggttttctgctgagtgtttgcaacaatatgctaattt-ttgcccttcagtaaataaattgctgaatctatttctgttctttgtcacctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTAAAGCTTTTGATCGCAAGGGTCACATTGCAAAACTGTGCTTAGTTTTTCT
|     | || |   |    | ||| | | | |    || ||  | |  ||   ||   |||  ||  | || | ||   |||||   |||||| || |||||||||| |||||||||||||||||||| |||||||||||||| |||||||| |||||||||||||| || |||||||||||  | ||| |||| |||||
tatacagtttgttctccatatattttcga-atttcattacttggtggatctgttgtctgtaatctgacgtatgtgttgtggttctcactcaccttctgcagGGTCTTTTGCTGGTCTAGGTTTTCTTGCGTGGTACTTGGCTGGTAAACTTAAGGCTTTTGATCGCAAAGGCCACATTGCAAAGTTATGCATAGTATTTCT

upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os08g27030.2 (Oryza sativa), 3'ss of exon 5
tgagagggttttctgctgagtgtttgcaacaatatgctaatttttgccct---tcagtaaataaattgctgaatctatttctgttctttgtcacctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTAAAGCTTTTGATCGCAAGGGTCACATTGCAAAACTGTGCTTAGTTTTTCT
  |||  | | | |  ||    |   ||  || ||| ||   ||  |  |   |  ||| ||||  || || |||| ||||  | |||| |    ||||  |||| |||| |||||||| ||||||||||| |||||||| || || ||||||||||||||| | ||  | || || ||||||||||| ||| |||| |||||
--agattgctatttcatggccataccca-taacatgttatccttccctatgtgttggtagataatctgatgtatctgtttcgatactttcttcattactttagGGGCTTTTGCTGGTCTGGGTTTTCTTGCGTGGTACTTAGCAGGCAAACTTAAAGCTTTTAAACGTGAAGGGCATATTGCAAAACTATGCCTAGTCTTTCT
















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|211272973|gb|FL366561.1|FL366561
EST:     GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT                         GGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
genomic: GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCATgtaagaaatg ... cctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
EST: gi|10697618|gb|BE997342.1|BE997342
EST:     GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT                         GGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
genomic: GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCATgtaagaaatg ... cctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
EST: gi|60357163|gb|DN224136.1|DN224136
EST:     GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT                         GGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
genomic: GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCATgtaagaaatg ... cctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
EST: gi|71762628|gb|DR960565.1|DR960565
EST:     GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT                         GGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
genomic: GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCATgtaagaaatg ... cctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
EST: gi|60350401|gb|DN217374.1|DN217374
EST:     GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT                         GGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA
genomic: GAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCATgtaagaaatg ... cctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcccttcagtaaataaattgctgaatctatttctgttctttgtcacctactccagGGTCTTTCGCTGGTCTAGGTTTTCTTGCATGGTACTTGGCTGGAAAACTTAAAGCTTTTGATCGCAAGGGTCACATTGCAAAACTGTGCTTAGTTTTTCT
                                             cctactcc  CT-rich tract
     tcagtaaataaatt  TA-rich tract