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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttaaataattatcttttgccatgccattacgatcccttgaaggttgtagtggtgtattttccttatcttatcgctgtatcttatgatttattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTGTCAAG

Basic information

species Zea mays
transcript GRMZM2G079538_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079538_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os04g32330.1 (Oryza sativa), 3'ss of exon 9
acttaaataattatcttttgccatgccattacgatcccttgaaggttgtagtggtgtattttccttatcttatcgctgtatcttatgat----ttattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTGTCAAG
   || |   ||   |   |   | | | | |   |     ||| |||    | | |  ||| ||  | || || |  || | | | |      ||  ||||||||| |||||||||||||| || ||||||||||| ||||| |||||||| ||||| ||||| ||||||||||| ||||| ||||||||||||
---tagaatcttgcatggcgtactactaattcttcctagaaaagcttggctagatatgcttttct-gttttgtccccttaccctgttaagacaatacaatgcagGACTAATTTGATGAAGCTGCGGTCTGATTATAAGGATGAGTTTGTCACCAAGCACGGTGTCAAATTGGGTCTGATGTCCTGCTTTGTCAAG

upper sequence: GRMZM2G079538_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA02G46200.1 (Glycine max), 3'ss of exon 11
------acttaaataattatct--tttgccatgccattacg-atcccttgaaggttgtagtggtgtattttccttatcttatcgctgtatcttatgatttattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTGTCAAG
         |   |  || |    |   | |  |  ||| | || |  | ||  |     |  |||||| ||     ||||| ||| |    |     | || ||  ||||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| || |||||||| ||||||||| |||||||||| 
agatttttcttggtctttgtgagatcaacaaacctgttatgcattctctcaaattcactattatgtattctctcc--cttattgctctgctct-----taatgat--agGACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTCAAA

upper sequence: GRMZM2G079538_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA14G02530.2 (Glycine max), 3'ss of exon 11
-acttaaataattatcttttgccatgccattacgatcccttgaaggttgtagtggtgtattttccttatcttatcgctgtatcttatgatttattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTGTCAAG
   |||| |    ||  ||     ||   || |  ||   |     |  ||||||  || | |  | ||  | |  ||   |  | || | |       ||||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| || |||||||| ||||||||| ||||||| || 
tgtttaattgccaattcttgatgttgtgtttcctgtcatgtccttat-atagtggattactattgtcattctcttccttattggtctgctcttaatgatagGACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTGAAA

upper sequence: GRMZM2G079538_T03 (Zea mays), 3'ss of exon 9
lower sequence: Vv19s0090g00750.t01 (Vitis vinifera), 3'ss of exon 6
----acttaaataattatcttttgccatgccattacgatcccttgaaggttgtagtggtgtattttccttatcttatcgctgtatcttatgatttattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTGTCAAG
       || ||| | |  ||     | ||  ||  |    ||   |||   |  |||||  ||||   | | || | |||||  |||     ||||  ||||||||||||||||||||||||||||||||||||||||||| |||| |   |||||||||||| || ||  |  |||||||  | ||||| |||
tcatcaatatatattgaaattgcctgacgcattttagcatgctatcaggcacttctggtgatttttgtctgtttt-ttgctgtg-cttgctgcttat--tgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGCATTTTTTGAAAAGCATGGTGTGAAGTTAAGATTTATGTCAGGGTTTGTTAAG

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|211104575|gb|FL031921.1|FL031921
EST:     ACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: ACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|148950981|gb|EC896624.2|EC896624
EST:     ATTCTCAGAACACCTTTGCAATGCTGAGTACATTTTAATGAAGT-GACAT                         GACCAATTTGATGAAGCTTCGTTCTGATAA-AAAGATGAATTTGTCACAAA
genomic: ATTCTCAGAACACCTTTGCAATGCTGAGTACATTT-AATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|211169880|gb|FL077609.1|FL077609
EST:     GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|31355590|gb|CD439947.1|CD439947
EST:     GATTCTCAGAACACCTTTGCTATGCTGAGTACATTTAATGAAGTTGACAT                         GACCAATTTTGATGA-GCTTCGTTCTGATTATAAAGA
genomic: GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTT-GATGAAGCTTCGTTCTGATTATAAAGA
EST: gi|32830086|gb|CD969764.1|CD969764
EST:     ACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: ACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|13558100|gb|BG549456.1|BG549456
EST:     ATTCTCAGAACACCTTTGCAATGTTGTGTTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: ATTCTCAGAACACCTTTGCAATGCTGAG-TACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|32942914|gb|CF047733.1|CF047733
EST:     GAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|60358853|gb|DN225826.1|DN225826
EST:     GTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|6227238|gb|AW155837.1|AW155837
EST:     GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|32829046|gb|CD968724.1|CD968724
EST:     ACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: ACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|32828877|gb|CD968555.1|CD968555
EST:     ACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: ACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|211169873|gb|FL077602.1|FL077602
EST:     GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|7145229|gb|AW506710.1|AW506710
EST:     GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|13558537|gb|BG549893.1|BG549893
EST:     ATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGTTGTTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAA
genomic: ATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAG-TTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAA
EST: gi|32867030|gb|CF006712.1|CF006712
EST:     GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|67019048|gb|CO447797.1|CO447797
EST:     GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTGAGTACATTTAATGAAGTTGACATgtaagtgttc ... tattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtagtggtgtattttccttatcttatcgctgtatcttatgatttattatgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTGTCAAG
                                 tatcttatgatttatt  TA-rich tract