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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggggatcgacaatgttgatgttccagcgtggtccagcatggtattcaggacaacacatcaattttgattaagtactgataatatttgttgattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTGAAGATTATATTCACAGGATAGGTCGAACTGGCCGTGCTGGTGCTAGCGG

Basic information

species Zea mays
transcript GRMZM2G362850_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g68320.4 (Oryza sativa), 3'ss of exon 8
tggggatcgacaatgttgatgttccagcgtggtccagcatggtattcaggacaacacatcaattttgattaagtactgataatatt--tgttgattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTGAAGATTATATTCACAGGATAGGTCGAACTGGCCGTGCTGGTGCTAGCGG
  | |||||||||||||||| | ||||  |||||     |||| |||||| ||| |     || |||||||  |||| || || ||  ||||  |||||||||||| ||||| || |||||||||||||||| |||||||||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||| ||
--gagatcgacaatgttgatatcccagtttggtctgctgtggtcttcagggcaaaagtattatcttgattacatactcatcattttcttgttatttttgcagATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTGAAGATTATATTCACAGAATAGGTCGAACTGGCCGCGCTGGTGCTAGTGG

upper sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA05G02590.1 (Glycine max), 3'ss of exon 8
---tggggatcgacaatgttgatgttccagcgtggtccagcatggtattcaggacaacacatcaattttgattaagtactgataatatttgttgat-tttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTGAAGATTATATTCACAGGATAGGTCGAACTGGCCGTGCTGGTGCTAGCGG
   | |      |||     |  | |   |  |  | |||  |  | | ||     | || | |   || |||   || ||||  | | | ||| |  | | ||||||||| |||||||| |||||||| ||||||||||||||| |||  || ||||||||| | ||||| || ||||||||||| ||||| || ||||  ||
ctctagaatcttacagcacagg-gataaggatttttgcagttt--tctccatttttaaaccttacacttaattcctta-tgatgttttgttttgttgctcgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATTTTCCATCAAGCCTGGAAGATTATGTCCACAGAATTGGTCGAACTGGTCGTGCAGGGGCTAAAGG

upper sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA17G09270.1 (Glycine max), 3'ss of exon 8
--tggggatcgacaatgttgatgttccagcgtggtccagcatggtattcaggacaacacatcaattttgattaagtactgataatatttgttgat-tttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTGAAGATTATATTCACAGGATAGGTCGAACTGGCCGTGCTGGTGCTAGCGG
  | |      ||| ||  |   |       |  | |||  |  | | ||     | |    |   || |||   || ||||  | | | ||| |  ||| ||||||||| |||||||| |||||||| |||||||||||||||||||  || ||||||||| | ||||| || ||||||||||| ||||| || ||||  ||
tctagaatcttacagtgcagggataaggattttttgcagttt--tctccatttttaaaacctacacttaattcctta-tgatgttttgttttgttgcttgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATTTTCCAACAAGCCTGGAAGATTATGTCCACAGAATTGGTCGAACTGGTCGTGCAGGGGCTAAAGG

upper sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT5G63120.1 (Arabidopsis thaliana), 3'ss of exon 9
-tggggatcgacaatgttgatgttccagc-gtggtccagcatggtattcaggacaacacatcaattttgattaagtactgataatatttgttgattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTGAAGATTATATTCACAGGATAGGTCGAACTGGCCGTGCTGGTGCTAGCGG
 |    |  || | |  || | |||   | |   | || |   ||  |  |    ||   |||| | || ||   |  |  |  | ||  ||  |||| |||||||||||||||| || |||||| | ||||||||||| ||||  ||  | || ||||| || || ||||| |||||||| || ||||| || ||||  ||
ttacacaaagaaatttctgttcttcttcctgcatttcatctcagt-ctatgatttacttctcaactgtg-ttccttctttcttcttttgttttgttttacagATGTGAAGGACATTAAATGTGTGGTTAATTATGATTTCCCAAATACATTGGAGGATTACATCCATAGGATTGGTCGAACCGGGCGTGCAGGAGCTAAAGG

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|76282629|gb|DV022197.1|DV022197
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|211366779|gb|FL192148.1|FL192148
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|19058018|gb|BM736685.1|BM736685
EST:     CGGCAAGAGCCCCATAATGGCTGCC-CAGATGTGGC-GC-CGTGGTCT-G                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTT
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTT
EST: gi|19350987|gb|BM895519.1|BM895519
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|211366781|gb|FL192150.1|FL192150
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|19350988|gb|BM895520.1|BM895520
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|32834713|gb|CD974391.1|CD974391
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|32835552|gb|CD975230.1|CD975230
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|32835744|gb|CD975422.1|CD975422
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|149060826|gb|EE157279.2|EE157279
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|87152035|gb|DY396824.1|DY396824
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|60353625|gb|DN220598.1|DN220598
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|26455349|gb|CA826932.1|CA826932
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|18965091|gb|BM661386.1|BM661386
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
EST: gi|116817908|gb|EC860818.1|EC860818
EST:     CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTG                         ATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG
genomic: CGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgat ... gattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaggacaacacatcaattttgattaagtactgataatatttgttgattttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTGAAGATTATATTCACAGGATAGGTCGAACTGGCCGTGCTGGTGCTAGCGG
               aattttgattaagtac  TA-rich tract