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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggaggatacgacaattaaaatattcctttttcttttatatctaaattccaggtttgttttattagttgttttttcacattggaaaaattcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGACCTAAAGCCGGAAAACTTGTTACTTGATTCAAAGTATAATGTAAAACTTG

Basic information

species Zea mays
transcript GRMZM2G107867_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107867_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g17980.2 (Oryza sativa), 3'ss of exon 3
-atggaggatacgacaattaaaatattcctttttcttttatatctaaattccaggtttgttttattagttgttttttcacattggaaaaattcatg-aacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGACCTAAAGCCGGAAAACTTGTTACTTGATTCAAAGTATAATGTAAAACTTG
  |     ||  || || |  | | || | || | | | || | |  | |     |   || | |   ||  | ||| | |  | |||| || ||| ||||||| |||||||| || ||||||||||| ||||||||||| || || ||||| || ||||| ||||||||| |||| |||||||||||||||||||| ||||
attattttatgggagaacttgagtttttcattgt-tctgatttgttgaatatgtatacattatctctcttaatattt-ataaggtaaaattttatggaacagATTATATCTGGGGTTGAATACTGCCACAGAAACATGGTGGTTCATCGTGATCTGAAGCCAGAAAACTTGCTACTGGATTCAAAGTATAATGTAAAGCTTG

upper sequence: GRMZM2G107867_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g37800.1 (Oryza sativa), 3'ss of exon 3
atggaggatacgacaattaaaatattcctttttcttttatatc-taaattccaggtttgttttattagttgttttttcacattggaaaaattcatg-aacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGACCTAAAGCCGGAAAACTTGTTACTTGATTCAAAGTATAATGTAAAACTTG
||  |   || |  || | | |  ||    || || | || |  |  | | ||  |   || | |   ||  | ||| | |  | |||| || ||| ||||||| |||||||| || ||||||||||| ||||||||||| || || ||||| || ||||| ||||||||| |||| |||||||||||||| ||||| ||||
att-attttatgggaacttagagtttttcattgctctgattttgttgaatacatatacattatttctcttaatattt-agaaggtaaaattttatggaacagATTATATCTGGGGTTGAATACTGCCACAGAAACATGGTGGTTCATCGTGATCTGAAGCCAGAAAACTTGCTACTGGATTCAAAGTATAACGTAAAGCTTG

upper sequence: GRMZM2G107867_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 3
------atggaggatacgacaattaaaatattcctttttcttttatatctaaattccaggtttgttttattagttgttttttcacattggaaaaattcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGACCTAAAGCCGGAAAACTTGTTACTTGATTCAAAGTATAATGTAAAACTTG
       |  |   ||    | | || || |  ||||       |    |  |||  |  ||   |||   ||||     ||  | |        || |||   |||| ||||| || || |||||||||||| |||||||||| || ||| | ||||| ||||| ||||||||| |  | || || || |  ||||||||  |||
gtatgtttttattttatttta-tcaacatgtaactttccaagcaaccattcgattttatattatatttgagagttaagaattagc-tacttggctttgatg--tagATAATATCAGGAGTGGAATACTGCCATCGAAACATGGTGGTTCACAGAGACCTCAAGCCTGAAAACTTGCTTTTGGACTCTAAATGCAATGTAAAGATTG

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|148999574|gb|EE036551.2|EE036551
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
EST: gi|60359581|gb|DN226554.1|DN226554
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
EST: gi|71329108|gb|DR801263.1|DR801263
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
EST: gi|89758870|gb|DY687889.1|DY687889
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
EST: gi|71447675|gb|DR828725.1|DR828725
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
EST: gi|211440534|gb|FL230371.1|FL230371
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
EST: gi|71437399|gb|DR818449.1|DR818449
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
EST: gi|211440538|gb|FL230375.1|FL230375
EST:     TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAG                         ATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC
genomic: TTGAGAAAGGCAGATTACAGGAAGATGAAGCTCGTCGAATCTTCCAGCAGgtatttatca ... tcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattccaggtttgttttattagttgttttttcacattggaaaaattcatgaacagATCATATCTGGCGTCGAATACTGCCATAGAAACATGGTTGTCCACCGTGACCTAAAGCCGGAAAACTTGTTACTTGATTCAAAGTATAATGTAAAACTTG
 atctaaa  putative branch site (score: 3)
         tttgttttattagttg  TA-rich tract