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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccttgttgttcttaagtatagaactatatttcactctttttattcccatttctctattaggactggagaatctaatgtctttttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG

Basic information

species Zea mays
transcript GRMZM2G022777_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g55260.1 (Oryza sativa), 3'ss of exon 7
tccttgttgttcttaagtatagaact-atatttcactctttttattcccatttctctattaggactggagaatc-taatgtctttttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
||  | |  |||  ||  || ||||| | |  |     |   ||     ||||   ||||     |  |   |  || | |  | |      |  | |||||| |||||||||||||| || ||||||||||||||||||||||| |||||||||||||| |||||||| ||||||||||| |||||||| |||||||| ||
tcaatctaattc--aatcatggaacttaaaacttttgatcaatagaagtatttaaatatttaattttaatgttggtatttttctgtgtgcgcgctaatgcagGGGATTCAGAGAAGCTAGTTAAAGTTCTGTTTGAGCTTGCTAGACATCATGCACCATCGACAATATTTCTTGATGAAATTGATGCTATTATCAGCCAACG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G26100.2 (Glycine max), 3'ss of exon 2
----------------tccttgttgttcttaagtataga---actatatttcactctttttattcccatttctctattaggactggagaatctaatgtcttt----ttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
                |   |    |  |||| || | |   || |||| ||| |   ||||  |  | ||      |     ||   |  |  |  | |      || || |  || |||||| |||||||||||| | || |||||  | ||||| ||||| |||||||||||||| || |||||||| ||||||||||| ||||| ||||| || || ||
gttagttagttacccattagttcaatagttaattacatatttacaatatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
tccttgttgttcttaagtataga---actatatttcactctttttattcccatttctctattaggactggagaatctaatgtcttt----ttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
         |  |||| || | |   || |||| ||| |   ||||  |  | ||      |     ||   |  |  |  | |      || || |  || |||||| |||||||||||| | || |||||  | ||||| ||||| |||||||||||||| || |||||||| ||||||||||| ||||| ||||| || || ||
-------aatagttaattacatatttacaatatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G09050.1 (Glycine max), 3'ss of exon 7
tccttgttgttcttaagtatagaac-tatatttcactctt--tttattcccatttctctattaggactggagaatctaatgtctttttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
   | |||  |   |  | || ||  |||   | | | |    | | |    || || |  |  || |    |   | |       ||| | || || |||||| |||||||||||| | || |||||  | ||||| ||||| |||||||||||||| || |||||||| ||||| ||||| ||||| ||||| || || ||
--atagttaattacagatttacaatatatcagttagtttaggctgaattagtttgctattctgtgaatatgtacatttacaaaaaattcttttg-gactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGACGAAATTGATGCAATCATTAGTCAACG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT2G34560.1 (Arabidopsis thaliana), 3'ss of exon 7
tccttgttgttcttaagtatagaactatatttcactctttttattcccatttctctattaggactggagaatctaatgtctttttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
    ||   |  ||  |||      | || |     |  |  | |   ||       ||||||      ||  |   | |||||  || | |   | |||| ||||| |||||| |  | | ||||||||| || || ||||||||||||||||| || |||||||| |||||||| || || || ||||| ||||| ||
---gtgaaatatttt-gtacctttatttactcttaaccatgaaataagatgcagtctttaggagaaataaaatttggg-cttttcaatgttt---ttcagGTGATTCTGAGAAGTTGATAAGAGTTCTGTTCGATCTAGCTAGGCATCATGCACCTTCGACAATATTTCTTGATGAGATCGACGCGATCATAAGCCAACG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
--tccttgttgttcttaagtatagaactatatttcactctttttattcccatttctctattaggactggagaatctaatgtcttttt-catatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
  |  ||  || | |    |||  | |  | | | |     |  | |  ||        ||| |   ||||  | | ||  |||| |   | |||   || ||| |||||||||||| | || |||||  | ||||||||||||||||| ||||| || || || ||||| ||||||||||| |||||  | ||||| || ||
gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaa---gttatggtgggagtgtatcattcctttatgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG

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|76281419|gb|DV020987.1|DV020987
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|91876817|gb|EB406774.1|EB406774
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|78106806|gb|DV525224.1|DV525224
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|149035101|gb|EE155087.2|EE155087
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|211165539|gb|FL456882.1|FL456882
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|78121929|gb|DV540313.1|DV540313
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|32837432|gb|CD977110.1|CD977110
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|148963213|gb|EE014191.2|EE014191
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|71297616|gb|DR784759.1|DR784759
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|32849820|gb|CD989501.1|CD989501
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|78109695|gb|DV528111.1|DV528111
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|76280583|gb|DV020151.1|DV020151
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|149080059|gb|EE169077.2|EE169077
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|67021064|gb|CO449813.1|CO449813
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|148963079|gb|EE014036.2|EE014036
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|32838514|gb|CD978192.1|CD978192
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|31355569|gb|CD439926.1|CD439926
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|76933170|gb|DV173349.1|DV173349
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|148995361|gb|EE034575.2|EE034575
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|31355560|gb|CD439917.1|CD439917
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
EST: gi|211131749|gb|FL468282.1|FL468282
EST:     AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG                         GAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG
genomic: AACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTGgtatggcttt ... gtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccatttctctattaggactggagaatctaatgtctttttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
                         atctaat  putative branch site (score: 3)
                                   tttttcatat  TA-rich tract