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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggagaaaggatctgtagtatattcctggcaagctatctttacactgatagattgtctcgtttctgttacatgataatttttttgcttaatttcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTGTATCGGCTGTCAGAACAACCAGAGTCATATGGAAACAGTTCTGTCTACA

Basic information

species Zea mays
transcript GRMZM2G322090_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G322090_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g41230.2 (Oryza sativa), 3'ss of exon 5
gggagaaaggatctgtagtatattcctggcaag---ctatctttacactgatagattgtct------cgtt-tctgttacatgataatttttttgcttaatt-tcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTGTATCGGCTGTCAGAACAACCAGAGTCATATGGAAACAGTTCTGTCTACA
           | |  |  ||||| ||||  |    || ||||     ||  |  |  |||      | |  ||| | | || ||    || |||  ||||| | |||||| |||||||||||||||  |||||| |||| |||||| || ||||||||||||   ||||||| ||| |  |  ||  | |||||||||||||| || || 
-----------tttacaagatatttctggagaagttctgtcttcttgttgggatgtgttctgtcaagcatcatctctaatataatgtcattgttggctaattcttatgcagGTACTGTGAGTGTTTTCATGCTGGTGTCTTTTGTTCAGAACCTTGTTCGTGTCAAGGCTGTCTGAATATGCCTAGCAACATGGAAACAGTTCTATCGACT

upper sequence: GRMZM2G322090_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA20G28740.1 (Glycine max), 3'ss of exon 10
gggagaaaggatctgtagtatattcctg-gcaagctatctttacactgatagattgtctcgtttctgttacatgataatttttttgcttaatttcatg--cagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTGTATCGGCTGTCAGAACAACCAGAGTCATATGGAAACAGTTCTGTCTACA
          || |     |  ||  ||   ||  | |  | | ||    |   |      |   |    | | || || |||||  ||||| |  |   |||||| |||||||| ||||||||||||||||| ||    || |||||| | ||   ||  ||    || || |  | |||| | || || |||||    || 
---cttctcaatttccttcagctttgtgcataatttgttctcatacatgaaatcttgagaataaataaggctttattatctttttaattaatctttttaccagTTATTGTGAGTGCTTTGCTGCTGGAGTCTACTGCATAGAACCTTGTGCATGCCGCGATTGCTTCAATAAACCTATTCATGTTGAGACTGTTCTTCAAACT

upper sequence: GRMZM2G322090_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA10G39080.1 (Glycine max), 3'ss of exon 11
gggagaaaggatctgtagtatattc---ctggcaagctatctttacactgatagattgtctcgtttctgttacatgataatttttttgcttaat----ttcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTGTATCGGCTGTCAGAACAACCAGAGTCATATGGAAACAGTTCTGTCTACA
      ||   |||  | |   |||    | |       ||| |    ||| || |||    |    |    | | || || ||| |  |||||    || |  |||||| |||||||| ||||||||||||||||| ||    || |||||| | ||    |  ||    || || |  | |||| | || || |||||    || 
------aatcttctcaatttccttcagctttgtgcatattctcttgcatgaaagcttgagaagaaa-taaggctttattatctttctaattaatcttttttaaccagTTATTGTGAGTGCTTTGCTGCTGGAGTCTACTGCATAGAACCTTGTGCATGCCATGATTGCTTCAATAAACCTATTCATGTTGAGACTGTTCTTCAAACT

upper sequence: GRMZM2G322090_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT4G14770.1 (Arabidopsis thaliana), 3'ss of exon 4
gggagaaaggatctgtagtatattcctggcaagctatctttacactgatagattgtctcgtttctgttacatgataatttttttgcttaatttcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTGTATCGGCTGTCAGAACAACCAGAGTCATATGGAAACAGTTCTGTCTACA
       | | ||   |||       |    | ||   ||  | ||   | |  || | || | |      |||   || |  || ||  | |  |||||||||||||| || ||||||||||||||||||||    ||||| ||||| ||||| | |||    || || |  |  |||   ||    || ||| | || 
-----gtaagctccaaagttccacatttttgatct---ttggcccttcaaaaaagtttggtgttt------tgagtcttctgatgtttg-tgtggtgcagTTACTGTGAATGCTTTGCTGCTGGAGTCTATTGCATAGAGCCATGTTCATGTATAGACTGCTTCAATAAACCTATCCATGAAGACGTTGTCCTGGCGACT

upper sequence: GRMZM2G322090_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv05s0020g03880.t01 (Vitis vinifera), 3'ss of exon 6
gggagaaaggatctgtagtatattcctggcaagct---atctttacactgatagatt--gtctcgtttctgttacatgataatttttttgcttaatttcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTGTATCGGCTGTCAGAACAACCAGAGTCATATGGAAACAGTTCTGTCTACA
  |     | |||| |        |   | ||  |   |  ||||   |  |   ||  || | |||  | | |  |||    ||||  ||||   |||||||||||||||||| || ||||||||||| ||||| |||   ||||| ||||| ||    |  ||    ||||| |  | ||||   || || |||||  | || 
-tgtctttgaatctttgaggggggcaaaggaaaattagaaatttattttatttccttctgttttgttcttatgatttgac--cttttaagctt--cttcatgcagTTACTGTGAATGCTTTGCTGCTGGTGTCTACTGTGTAGAGCCATGTTCATGCCAAGAATGCTTTAACAAACCTATTCATGAAGATACTGTTCTTGCAACT

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|32937961|gb|CF042780.1|CF042780
EST:     GGCACTTCATGCAAGCGTTGTAGTTGTAAGAAGTCAAAATGCCTGAAACT                         TTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTG
genomic: GGCACTTCATGCAAGCGTTGTAGTTGTAAGAAGTCAAAATGCCTGAAACTgtaagtttga ... tttcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTG
EST: gi|32932949|gb|CF037761.1|CF037761
EST:     GGCACTTCATGCAAGCGTTGTAGTTGTAAGAAGTCAAAATGCCTGAAACT                         TTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTG
genomic: GGCACTTCATGCAAGCGTTGTAGTTGTAAGAAGTCAAAATGCCTGAAACTgtaagtttga ... tttcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatagattgtctcgtttctgttacatgataatttttttgcttaatttcatgcagTTACTGTGAGTGTTTTGCTGCTGGAGTCTATTGTTCTGAGCCTTGTTCGTGTATCGGCTGTCAGAACAACCAGAGTCATATGGAAACAGTTCTGTCTACA
                     ttacatgataattttt  TA-rich tract