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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT

Basic information

species Zea mays
transcript GRMZM2G135283_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 7
------------atttgtcactg--tcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT
            |||| ||| ||  |||| |||||||  || || ||  |||||  ||||||||  |              | ||   |||||| ||||||||| | || | || |||||||||| || |||||||||||||||||||||||| |||| ||||||||||||||||| || || ||||| |||||||| |||||||||       
attatctaggatatttttcattgcctcatatctctttcaattgtgaaattatttcaagatgaatttc--------------tgctgacatgcttgatttgctacttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCAAGTGCATATGCGCGTCTTTATGACTATGACCGCATGCGGAAG-------

upper sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctat----gcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT
   ||| |       ||   ||   |   |  | |  |       | |  || |||      | |   | ||||||    |||| | ||  |   |||    ||||||||||||| || |  |||||||||||||| || ||  |||||||||| ||||| |||||||| || ||||||||||  ||| | || |||       
---tgtgatgaggggttagattcacactttgca-aagtccccctttcatgcatactgttggttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG-------

upper sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 7
----atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT
    |   || |   |||    | |||| |  ||   | | |  ||  ||         | | ||  |  | | |  || |||| | ||  |   |||    ||||||||||||| || || |||||||||||||| || ||  |||||||||| ||||| |||||||| || ||||||||||  ||| | || |||       
gatgaggggttagattcacacttatttgcaaagtccccctttcatgc-atactgttggttgagac--tgttctataata-gcttgacttatttaatattcgcagTTGGAGAAAAGTGCAGTACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG-------

upper sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT4G37930.1 (Arabidopsis thaliana), 3'ss of exon 7
atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT
          ||  ||     || |||  ||| ||    | |  |   || ||     | | | |         ||   || |||  |    || |  || |||||||||| |||  |||||| |||||||| |||||  |||||||||||||||| |||||| |  | ||||| |||| ||| ||  | |||       
----------gttcttaactcttctat--taagcaatcatagtaacttataactaacccgcttcataacaatacataagtc-tttaattttgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG-------

upper sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S79_54V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------------------------------------------------------atttgtcactgtcatttctctttg--tatggtaaacatattttgagatgaatcacactaacaccttactttc--tcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT
                                                                                         || ||    ||    || | | |   |||| | |   |  |||      |    |  | |     |   |    |   |    ||| ||  |    || |  || ||||||||||||| |||||||  |||||||| |||||  | |||||||| ||||| |||||||| |  || || ||||  |||||||| |||       
gtactaactgcaaaccattagttgtggtcctgtataatgctcttatgcatgtacatccttttgatgtatatccttggataatatttttgatgtgattttgaggattgtttctagctatgatcactctccttttcctaaacatgcgttgaagttgtgagtctaatttaacagatcaatt--tggaaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCCAGTGCCTATGCTCGCCATTACGACTATGCTCGTATGCGCAAG-------

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|148946029|gb|EC891328.2|EC891328
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|149012532|gb|EE042603.2|EE042603
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|211286148|gb|FL173729.1|FL173729
EST:     A-TGCCTTACAGATTGGATGAAAGCACTGGGAT-GATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGC-AAAGTTGAATCATGGCTGGTGC
genomic: AATGCCTTACAGATTGGATGAAAGCACTGG-ATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGA-TCATTGCTGGTGC
EST: gi|148969981|gb|EE020895.2|EE020895
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|71299012|gb|DR785498.1|DR785498
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|148947246|gb|EC892606.2|EC892606
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAANAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|149081312|gb|EE170425.2|EE170425
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|148945831|gb|EC891120.2|EC891120
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|148973319|gb|EE024404.2|EE024404
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
EST: gi|149089957|gb|EE179246.2|EE179246
EST:     CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG                         TTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA
genomic: CAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcattttcc ... ctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatcacactaacaccttactttctcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT
                                              tatgtata  TA-rich tract