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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgttttcatacccaccttcctttatatctgtatatgtactgcatgactgaaatttgtttctcaacacaagagggattatttacgatgctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAGACAAGTGCCCTTCCGCCGTCCTTGCTG

Basic information

species Zea mays
transcript GRMZM2G168629_T04
intron # 26
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 26
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 26
--acttgttttcatacccaccttcctttatatctgtatatgtactgcatgactgaaatttgtttctcaacacaagagggattatttacgatgctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAGACAAGTGCCCTTCCGCCGTCCTTGCTG
  | |  ||||   ||     ||| | | |   ||| ||||    | || ||  |   |    |  |  |      |   |  | |   |  |  | || ||| ||||| || || ||||||||||||||| ||||||| |||||||||||||||||||||||||| || || || || |
gcagtgcttttttcactagtattcgtatcttcttgtttatgcttagtat-acacacgctgtaataactgcttttttgttgtcttatggaac-cactttgtagATCATTATGATGTAAAAATGCCTTGCCATCTGATTCTCTCAAAGCTAGCAGACAAGTGCCCTTCTGCTGTTCTGGCAG

upper sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 26
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 27
-------------------------------------------------------------------------------------acttgttttcatacccaccttcctttatatctgtatatgtactgcatgactgaaattt-gtttctcaacacaagagggattatttacgatgctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAGACAAGTGCCCTTCCGCCGTCCTTGCTG
                                                                                       ||  ||||||  |  |  | ||  |  |   |  ||||  |  ||   |||| ||| |||| |||   |  ||      ||| |    ||| |   |||| ||||| || || ||||||||||||||| | || || ||||| || |||||||||||||| ||||||||  | || |
gtgcgtttttatttttttatttttaacaagaccatcattcttttttacttcactttatttttttcacccttttccccccactttagtttagtttcatttcagc--tgctaaaagttatttcatgt-ttctatacttgaagtttagtttatcacttcctgaactgaaattgatttggctcttctcagATCATTATGATGTCAAAATGCCTTGCCATCTTATCCTTTCAAAACTTGCAGACAAGTGCCCATCCGCCGTATTGGCAG

upper sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 26
lower sequence: PP1S35_209V6.1 (Physcomitrella patens), 3'ss of exon 26
---acttgttttcatacccaccttcctttatatctgtatatgtactgcatgactgaaatttgtttctcaacacaagagggattatttacgatgctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAGACAAGTGCCCTTCCGCCGTCCTTGCTG
    |        ||   ||  ||  || | || ||| |  |   |  ||  ||    | |  |  |||  ||||   |       | |  | |||| |||||| |||||||| ||||||||||| || ||| | || ||||||||| | |||| |||||||      || || || ||||
ggatcaaagcagtatgtgcagttttattaacat-tgtttgaggtttctatt-ctattctattctattcagaacaaaccgtcaccactgct-tcctttgtgcagATCATTACGATGTGAAAATGCCATGTCATCTAATCCTATCAAAGTTGGCAGCCAAGTGCGGAGGTGCAGTTCTAGCTG

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|32924248|gb|CF029060.1|CF029060
EST:     ACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: ACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|166643623|gb|EG090562.1|EG090562
EST:     GTGAATCCATCGTCCTTCTATTGTACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTAT
genomic: GTGAATCCATCGTCCTTC-ATTGTACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTAT
EST: gi|166698756|gb|EG168762.1|EG168762
EST:     GTGAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGC
genomic: GTGAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGC
EST: gi|32924416|gb|CF029228.1|CF029228
EST:     TACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: TACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|32923836|gb|CF028648.1|CF028648
EST:     ACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: ACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|40335220|gb|CK369290.1|CK369290
EST:     AGTGAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: AGTGAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|32923972|gb|CF028784.1|CF028784
EST:     ACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTGGCAG
genomic: ACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|29544507|gb|CB604887.1|CB604887
EST:     AG-GAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGGTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: AGTGAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|50322915|gb|CO518041.1|CO518041
EST:     AGTGAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: AGTGAATCCATCGTCCTTCATTGTACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|33095774|gb|CF055768.1|CF055768
EST:     ACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: ACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
EST: gi|32923875|gb|CF028687.1|CF028687
EST:     GTACCTTTCCTCTTGTCTGGTTTAGGTG                         ACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG
genomic: GTACCTTTCCTCTTGTCTGGTTTAGGTGgtaagtacgg ... ctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgactgaaatttgtttctcaacacaagagggattatttacgatgctttctgcagACCATTACGACGTGAAAATGCCTTGCCATTTGATTCTATCAAAGCTAGCAGACAAGTGCCCTTCCGCCGTCCTTGCTG
                                           tgctttct  CT-rich tract
       aaatttgttt  TA-rich tract