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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgaactggtgcatgcacgtcgtgctcgtagaattcatctaattagcatttgacatttatatctacttaacatttgtcatttatatttgggtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTCAAAACAAAATGCTAAAG

Basic information

species Zea mays
transcript GRMZM2G107731_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107731_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g17930.1 (Oryza sativa), 3'ss of exon 3
atgaactggtgcatgcacg-tcgtgctcgtagaattcatctaattagcatttgacatttatatctacttaacatt----tgtcatttatatttgggtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTCAAAACAAAATGCTAAAG
    ||||||  | ||| | || ||| |  |  || | ||||   |    || | | | | || ||  |   |||    |||  ||| | |||||   |||||||| |||||||| ||||| | |||||| |||||||||||||| |||||||||||||| ||||||||||||
--atactggtttacgcatgctcatgc-cacatgatgcttctag--aattattcagactaacatgtatcttgtattcctgtgtggtttgtgtttggtctcttgcagCTATTGCAGTTAAAGAGAAACTAGAGTCTCTTTGTAGGGAGTTTCAGCGTCAAAATAAAATGCTAAAG
















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|71436912|gb|DR817962.1|DR817962
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
EST: gi|78116277|gb|DV534664.1|DV534664
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGAACTAGA-TCTCTTTGTAAGGAATTTTCACCG
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGA-CTAGAATCTCTTTGTAGGGAATTT-CAGCG
EST: gi|149081200|gb|EE170309.2|EE170309
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
EST: gi|149027108|gb|EE046399.2|EE046399
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
EST: gi|148994670|gb|EE034191.2|EE034191
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
EST: gi|148961119|gb|EE011825.2|EE011825
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
EST: gi|149071351|gb|EE159746.2|EE159746
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCT
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCT
EST: gi|31354731|gb|CD439088.1|CD439088
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
EST: gi|60358220|gb|DN225193.1|DN225193
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
EST: gi|91055771|gb|EB166189.1|EB166189
EST:     ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAG                         CCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC
genomic: ATTTCAACTAGCCCAGCAATACCACAAAGTGGTTGCAGAAAGGGATCAAGgttagtttaa ... gtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatttgacatttatatctacttaacatttgtcatttatatttgggtccttgcagCCATTGCAGTCAAAGATAGACTAGAATCTCTTTGTAGGGAATTTCAGCGTCAAAACAAAATGCTAAAG
                   acttaac  putative branch site (score: 3)
                                              tccttgc  putative PPT
         atttatatctacttaa  TA-rich tract