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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcattcaaaccagtttgtttgaaacttaaaaattccaatgtcaattgcggaattgcctgatatccattctcattttgtttctccctaacttgatctcagCGTGAAGATTGGAGACTGCGTCCTCTGACTCCAGAAATGATCGAGTATGCACGCACTGATGCTCACTATCTGTTATACATTGCAAATTGTTTGGCATCAG

Basic information

species Zea mays
transcript GRMZM2G048819_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048819_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g32890.1 (Oryza sativa), 3'ss of exon 5
---ggcattcaaaccagtttgtttgaaacttaaaaattccaatgtcaattgcggaattgc-ctgatatccatt-ctcattttgtttctccctaacttgatctcagCGTGAAGATTGGAGACTGCGTCCTCTGACTCCAGAAATGATCGAGTATGCACGCACTGATGCTCACTATCTGTTATACATTGCAAATTGTTTGGCATCAG
     | |   |   | ||     ||||   |  | ||    |  ||    |  | |||| || || |  |    ||||| |  ||    || |    || ||||||||| ||||||||| | || || || || |||||||||||  ||||||| ||   |||||| || |||||||| |||||||||||||||||||||||||
cccaacgtcagatatacttgaccggaaag--agcagtttgttttccagcatcacagttgctctcatttttacggttcattctccttgattctgat---atttcagCGTGAGGATTGGAGATTACGCCCACTAACACCAGAAATGATTCAGTATGCCCGTTGTGATGCGCATTATCTGTTGTACATTGCAAATTGTTTGGCATCAG

upper sequence: GRMZM2G048819_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT2G32415.1 (Arabidopsis thaliana), 3'ss of exon 5
---ggcattcaaaccagtttgtttgaaacttaa--aaattccaatgtcaattgcggaattgcctgatatccattctcattttgtttctccc-taacttgatctcagCGTGAAGATTGGAGACTGCGTCCTCTGACTCCAGAAATGATCGAGTATGCACGCACTGATGCTCACTATCTGTTATACATTGCAAATTGTTTGGCATCAG
    |   |  ||| | |    | |    |||   |  |   | | |    |   |||      | |    | | | | | | || ||    ||  || |    |||||||||||||||||| |||||||||| |   ||| ||| |    |||||  | || ||||| ||||||||| | || |||||| || ||||| || | |
gtcagtgctttaac-attacactagtcttttagccatgtcttactcttttctatcgaagcttaagttggtgactttaactcttttgctttgatattttcaatgaagCGTGAAGATTGGAGACAGCGTCCTCTGTCCGAAGAGATGGTGCGATATGCTAGAACAGATGCACACTATCTGCTTTATATTGCAGATAGTTTGACAACTG

upper sequence: GRMZM2G048819_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 5
ggcattcaaaccagtttgtttgaaacttaaaaattccaatgtcaattgcggaattgcctgatatccattctcattttgtttctccctaacttgatctcagCGTGAAGATTGGAGACTGCGTCCTCTGACTCCAGAAATGATCGAGTATGCACGCACTGATGCTCACTATCTGTTATACATTGCAAATTGTTTGGCATCAG
              || | | || |||      | |   |||  ||  |     |    |    |||   |    |  ||  ||     ||  ||   ||||||||||||||||||  ||||| ||| |   ||||||| | || ||||| |  |||||||| ||||||||||| || ||||||||||||||     | |
------------gtttgggtcgacact--gtcttgctgttgtgcatctccttgcttttggcagaccaaagtttgctaattattcttcttctgaattgtagCGTGAAGATTGGAGACAACGTCCACTGTCAGTAGAAATGCTAGAATATGCTCAGACTGATGCACACTATCTGTTGTATATTGCAAATTGTTTAATTGCTG

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|211165060|gb|FL318150.1|FL318150
EST:     CATATTTGCTTGAAGTATATTGTGAAGTGACCACCGACAAGACAATGCAG                         CGTGAAGATTGGAGACTGCGTCCTCTGACTCCAGAAATGATCGAGTATGCA
genomic: CATATTTGCTTGAAGTATATTGTGAAGTGACCACCGACAAGACAATGCAGgtaggtaatc ... ttgatctcagCGTGAAGATTGGAGACTGCGTCCTCTGACTCCAGAAATGATCGAGTATGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcggaattgcctgatatccattctcattttgtttctccctaacttgatctcagCGTGAAGATTGGAGACTGCGTCCTCTGACTCCAGAAATGATCGAGTATGCACGCACTGATGCTCACTATCTGTTATACATTGCAAATTGTTTGGCATCAG
                                 tttctccctaactt  CT-rich tract
                           attttgttt  TA-rich tract