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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgccccttgtcctaacacaccttgggtgtataccttttcaagtttacaagtagattacgcctgcaacatatagtttctcacatggaatttgtatgagatgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAACACGCACTACGTGTACCTTCCCATCACGGAGGTCATCACAGCACCGAAGC

Basic information

species Zea mays
transcript GRMZM2G139360_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139360_T06 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os08g34050.1 (Oryza sativa), 3'ss of exon 12
gtaagttgccccttgtcctaacacaccttgggtgtataccttttcaagt--------ttacaagtag-attac-gcctgcaacatatagtttctcacatggaatttgtatga-gatgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAACACGCACTACGTGTACCTTCCCATCACGGAGGTCATCACAGCACCGAAGC
|||||| ||  |  |      ||  |||  |   | || ||||  ||||         || | |||| ||| | |||     ||||| |||  | | ||| ||  || |||| | ||||  ||||||||||| ||||||||||| ||||| ||||||||||||||||||||||||||||||||||| ||||| |||||||| || ||||| |||| ||||||||
gtaagtcgcttcaggcat--gcaggcctctgacatctatctttcgaagtgtggaggactagaggtagcattgctgcccatgtcatatggttggttaaatgaaaactgcatgatggtgcctgcagGTCCATGGAGCATTTGCTGGGTTCAGTGGCATCACTTCTTGCATCTGCAACACGCACTACGTCTACCTCCCCATCACAGAAGTCATAACAGTACCGAAGC
















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|78122325|gb|DV540709.1|DV540709
EST:     GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCT                         GTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
genomic: GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCTgtaagttgcc ... atgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
EST: gi|86471567|gb|DY237937.1|DY237937
EST:     GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCT                         GTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
genomic: GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCTgtaagttgcc ... atgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
EST: gi|71756772|gb|DR954709.1|DR954709
EST:     GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCT                         GTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
genomic: GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCTgtaagttgcc ... atgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
EST: gi|211462113|gb|FK976520.1|FK976520
EST:     TACCGTGCTCGGACAAAATGCT                         GTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
genomic: TACCGTGCTCGGACAAAATGCTgtaagttgcc ... atgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
EST: gi|76021502|gb|DT948672.1|DT948672
EST:     GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCT                         GTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC
genomic: GTGCCAACGCATCTGATGCAATTTTGTGTACCGTGCTCGGACAAAATGCTgtaagttgcc ... atgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattacgcctgcaacatatagtttctcacatggaatttgtatgagatgcccacagGTCCATGGGGCATTTGCTGGTTTCAGCGGCATCACTTCTTGCATCTGCAACACGCACTACGTGTACCTTCCCATCACGGAGGTCATCACAGCACCGAAGC
                      ttctcac  putative branch site (score: 2)
               atatagttt  TA-rich tract