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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtaaacttcaataatgatcatttggcataccattatgatcctttgaaggctgtattaatttttttactctatctctgtatcttacgatttatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG

Basic information

species Zea mays
transcript GRMZM5G807639_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G807639_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os04g32330.1 (Oryza sativa), 3'ss of exon 9
tgtaaacttcaataatgatcatttggcataccattatgatcctttgaaggctgtattaatttttttactctatctctgtatc---ttacgatt-tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG-----
|  || |||  ||   |  |   |       | |    |  |||    ||||  ||    |||| |  | | || |  || |   ||| ||   ||  ||  ||||| |||||||||||||| || ||||||||||| ||||| |||||||| ||||| ||||||||||||||||| ||||| |||||||     
tagaatcttgcatggcgtactactaattcttcctagaaaagctt----ggctagatatgcttttctgttttgtccccttaccctgttaagacaatacaatgcagGACTAATTTGATGAAGCTGCGGTCTGATTATAAGGATGAGTTTGTCACCAAGCACGGTGTCAAATTGGGTCTGATGTCCTGCTTTGTCAAG

upper sequence: GRMZM5G807639_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA02G46200.1 (Glycine max), 3'ss of exon 11
-tgtaaacttcaataatgatcat-ttggcatacc-attatg-atcctttgaaggctgtattaatttttttactctatctctgtatcttacgatttatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG-----
   |     |   |  |  | |  |   || |||  ||||| || || | ||   |  | || | | | | ||||  ||   |    | |  || |||||  ||||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| ||||||||||| ||||||||| ||||||     
agatttttcttggtctttgtgagatcaacaaacctgttatgcattctctcaaa--ttcactattatgtattctctcccttattgctctgctcttaatgat--agGACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTCAAA

upper sequence: GRMZM5G807639_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA14G02530.2 (Glycine max), 3'ss of exon 11
--tgtaaacttcaataatgatcatttggcataccattatgatcctttgaaggctgtattaatttttttactctatctctgtatcttacgatttatgat-atagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG-----
  | |||    ||||  |     ||  |  | |  | |||  | | |  ||  || |||| | || | | ||| |  || |||    |   |  | || ||||||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| ||||||||||| ||||||||| ||||||     
tgtttaattgccaattcttgatgttgtgtttcctgtcatgtccttatatag--tggattactattgtcattctcttcct-tattggtctgctcttaatgatagGACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTGAAA

upper sequence: GRMZM5G807639_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv19s0090g00750.t01 (Vitis vinifera), 3'ss of exon 6
-tgtaaacttcaataatgatcatttggcataccattatgatcctttgaagg--ctgtattaatttttttactctatct-ctgtatcttacgatttatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG-----
   | ||  |  ||    ||    || |  |   |||  || || | | |    | |  | |||||| |    | | | ||||  ||| |   ||||  |  |||||||||||||||||||||||||||||||||||||||| |||| |   |||||||||||| || ||  |  |||||||  | ||||     
tcatcaatatatattgaaattgcctgacgcatt-ttagcatgctatcaggcacttctggtgatttttgtctgttttttgctgtg-cttgctgcttat--tgcagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGCATTTTTTGAAAAGCATGGTGTGAAGTTAAGATTTATGTCAGGGTTTGTTAAG

upper sequence: GRMZM5G807639_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv10s0116g01480.t01 (Vitis vinifera), 3'ss of exon 12
tgtaaacttcaataatgat-catttggcataccattatgatcctttgaaggctgtattaatttttttactctatctctgtatcttacgattta------tgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG-----
       ||| || ||| |  || |     |   |     ||| ||  ||    ||||||||| || ||||  | | |   |  | |  | |       |  | |||||| || || |||||||| |||||||||||||||||||  ||| |    |||||||| || || ||||| || |||||| | |||      
-------ttccatcatgctgtatataatccattttccctttccatttcagaaaatattaatttgttgactcactttttcgttgctgctgtgtgcttattttgtttagGACAAACTTAATGAAGCTCCGTTCTGATTATAAAGATGCTTTTCTTGAGAAGCATGGAGTGAAGTTGGGGCTGATGTCTGGATTTATTAAA

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|32935625|gb|CF040437.1|CF040437
EST:     ATTCTCAGAACACCTTTGCAATGCTGA-GTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: ATTCTCAGAACACCTTTGCAATGCT-ATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|67031724|gb|CO460473.1|CO460473
EST:     GATTCTCAGAACACCCTTGCAATGCTATCTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGGC-CAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|211169877|gb|FL077606.1|FL077606
EST:     GATTCTCAGAACACCTTTGCAATGCTATCTACRNKTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|31349005|gb|CD433362.1|CD433362
EST:     GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|60343714|gb|DN210687.1|DN210687
EST:     GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|67025111|gb|CO453860.1|CO453860
EST:     GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|6020821|gb|AW065749.1|AW065749
EST:     GATTCTCAG-ACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|6056485|gb|AW090875.1|AW090875
EST:     GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAG-TGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
EST: gi|7031253|gb|AW461141.1|AW461141
EST:     GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACAT                         GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA
genomic: GATTCTCAGAACACCTTTGCAATGCTATCTACATTTAATGAAGTTGACATgtaagtgttc ... tatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaggctgtattaatttttttactctatctctgtatcttacgatttatgatatagGACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG
      tgtattaattttttta  TA-rich tract