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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaacaaaacagttacttccttgaagtatatagatttagttattaaggtatattgagtttatgcaaactgttactgacaattatttctgctacgatttagTGGACTCATTAGACCACATCCTGCCATTTGGAGGCTTGTTCATGGGATGACAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTTCAG

Basic information

species Zea mays
transcript GRMZM2G095757_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 3
tgaacaaaaca--gttacttccttgaagtatatagatttagttattaaggtatattgagtttatgcaaactgttactgacaattatttctgctacgatttagTGGACTCATTAGACCACATCCTGCCATTTGGAGGCTTGTTCATGGGATGACAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTTCAG
  |   |  ||  ||| | |     ||  |||||   | | ||       | | |  | |||     |||  ||||| | | |||||| | ||| |||| |||| ||| |||||||||||||||||||||||| |||| || || |||||| |||||||||||||||| || || ||||| |||||||| |||
-aagtgaggcactgttccatttcctaaaaatataacctca-ttgggggcttctctgtaattttgtttaacatttacttatatttatttatactatgattcagTGTACTTATTAGACCACATCCTGCCATTTGGCGGCTGGTCCACGGGATGGCAGTTGTTTACCTTGTTGCTCTAACTTTTTTGCTTTTCCAG

upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 6
--tgaacaaaacagttacttccttgaagtatatagatttagttattaaggtatattgagtttatgcaaactgttactgacaattatttctgctacgatttagTGGACTCATTAGACCACATCCTGCCATTTGGAGGCTTGTTCATGGGATGACAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTTCAG
  | |  | |  ||||   |  ||     |  |  | |||  || |||  | | |   |   ||   | |||    |     || ||  || |   ||| || |  || ||||| ||||||||||| |||||| |  | |||||||| ||| | ||||| ||||| || |||||||| || ||||||||||||
agtaataatattagttgagtttttagttcagctgaagtta--tagtaaattttctcttgagaatattacctgaatatatttttttttcatgttttcattcagGGTTCTTATTAGGCCACATCCTGCAATTTGGCGCTTGGTTCATGGCATGGCTGTTGTATACCTAGTTGCCCTCACATTTTTGCTTTTTCAG

upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 4
tgaacaaaacagttacttccttgaagtatatagatttagttattaaggtatattgagtttatgc---aaactgttac-tgacaattatttc-----tgctacgatttagTGGACTCATTAGACCACATCCTGCCATTTGGAGGCTTGTTCATGGGATGACAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTTCAG
     | |  | | |  |   |  ||| | ||| || || |   ||| | || ||| |||   |   | ||| |||| |||  ||| |||      |  |   ||| || |  || ||||| ||||||||||| |||||| |  | |||||||| ||| | |||||||||||||| |||||||| || ||||||||||||
-----agagtaataatattagttgagttt-tag-ttcagctg--aagttgtagtgaattttctcttgagactattacctgaatatttttttcttattattttcattcagGGTTCTTATTAGGCCACATCCTGCAATTTGGCGCTTGGTTCATGGAATGGCTGTTGTTTACCTTGTTGCCCTCACATTTTTGCTTTTTCAG

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|211278210|gb|FL461478.1|FL461478
EST:     GCGATGATTGCTGNNNNNNNGGCTTACTCTTTTCTTCAGGCACCTTCAAC                         TGGACTCATTAGACCACATCCTGCCATTTGGAGGCTTGTTCATGGGATGAC
genomic: GCGATGATTGCTGTTTTTTTGGCTTACTCTTTTCTTCAGGCACCTTCAACgtgagttaca ... tacgatttagTGGACTCATTAGACCACATCCTGCCATTTGGAGGCTTGTTCATGGGATGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtatattgagtttatgcaaactgttactgacaattatttctgctacgatttagTGGACTCATTAGACCACATCCTGCCATTTGGAGGCTTGTTCATGGGATGACAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTTCAG
                          tactgac  putative branch site (score: 1)
                                      tttctgct  putative PPT
                               acaattattt  TA-rich tract