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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttgccctttttttagttcctttttgcacttttttagttcttgtttgtgccttttcagttttcaatacatcttcatctgaagcttctcttgatgtgcagGGTTCTCAGCCATGTGCTTACTATGCACACCATGGGTATTGCAAGTTTGGGCCGACATGCAAGTTTGATCACCCGATGGGTACTCCAAACTATAGTATTT

Basic information

species Zea mays
transcript GRMZM2G069009_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069009_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g15350.1 (Oryza sativa), 3'ss of exon 6
----tgttgccctttttttagttcctttttgcacttttttagttcttgtttgtgccttttcagtt-ttcaatacatcttcatctgaagcttctcttgatgtgcagGGTTCTCAGCCATGTGCTTACTATGCACACCATGGGTATTGCAAGTTTGGGCCGACATGCAAGTTTGATCACCCGATGGGTACTCCAAACTATAGTATTT
        ||  || || ||  |   |  | || |    |  |  |||||| ||  ||| || || ||||||   | ||||| ||||| ||  |||||| ||||||||   || ||||||||||||||| |||| ||||| | |||||| ||||| ||||| ||||||||||||||||| |||||||||| || ||||||   ||
gaacacaagctattcttgtatatggatgatacattacacttctatttgtttctg--tttgcacttgttcaat---tattcatatgaagttttccttgatttgcagGGTAGCCAACCATGTGCTTACTATACACAGCATGGATTTTGCAAATTTGGTCCGACTTGCAAGTTTGATCACCCAATGGGTACTCTAAGCTATAGCCCTT

upper sequence: GRMZM2G069009_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 6
--tgttgccctttttttagttcctttttgcacttttttagt-tcttgtttgtgccttttcagttttcaatacatcttcatctgaagcttctct-tgatgtgcagGGTTCTCAGCCATGTGCTTACTATGCACACCATGGGTATTGCAAGTTTGGGCCGACATGCAAGTTTGATCACCCGATGGGTACTCCAAACTATAGTATTT
  || ||      ||| |   | ||| | |  |   |  || | ||  |||    | |||   | |    |      |||||||   |  | | ||||   |||||| | |  | |||  || |||||||||| | |||    |||||||||||||| |||||||| ||||||||||| ||||| || |  |  ||||||   |
tatgctgattcactttcatggcatttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatg----catctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
















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|78114959|gb|DV533347.1|DV533347
EST:     AAAGTCTAACTGCATACTGAGCCCTCTGGGTCTCCCCCTCCGTCCT                         GGTTCTCAGCCATGTGCTTACTATGCACACCATGGGTATTGCAAGTTTGGG
genomic: AAAGTCTAACTGCATACTGAGCCCTCTGGGTCTCCCCCTCCGTCCTgtgagtagat ... tgatgtgcagGGTTCTCAGCCATGTGCTTACTATGCACACCATGGGTATTGCAAGTTTGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgccttttcagttttcaatacatcttcatctgaagcttctcttgatgtgcagGGTTCTCAGCCATGTGCTTACTATGCACACCATGGGTATTGCAAGTTTGGGCCGACATGCAAGTTTGATCACCCGATGGGTACTCCAAACTATAGTATTT
                                          tcttgat  putative branch site (score: 4)
                                      cttctctt  CT-rich tract
              ttttcaata  TA-rich tract