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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttccattttttaagctgtaatgagatcatttctgattgttgttgttgtttgccgcttacgccgtatatattctctctttcagGTTATGGCAGTAACTAGAAGTACAATCTGCAAAAAAGGAATAGAGTCCCTTCCCAGGGGAGGTGCCATCATCTATTATGTCTGTGTTTTCCTGTACTTCT

Basic information

species Zea mays
transcript GRMZM2G018356_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os07g04210.1 (Oryza sativa), 3'ss of exon 14
gttcttccatttttta-agctgtaatgagatc---atttctgattgttgttgttgtttgccgcttacgccgtatatattctctctttcagGTTATGGCAGTAACTAGAAGTACAATCTGCAAAAAAGGAATAGAGTCCCTTCCCAGGGGAGGTGCCATCATCTATTATGTCTGTGTTTTCCTGTACTTCT
        ||| || | |  | ||     |||   |||||||| |     |    ||| |  |    |   | ||||||  || ||||||||||||||||| || || || |||||||||| |||||||||||||||||||||  | ||||| || |||||||| ||||| || || ||||||||||| |
-----gttattcttcataaatataccagaatcgctatttctgagttcctgtaccattttcaaccc-tgtaatgtatatttgctatttcagGTTATGGCAGTTACGAGGAGCACAATCTGCAGAAAAGGAATAGAGTCCCTTCCTCGAGGAGGAGCGATCATCTACTATGTTTGCGTCTTCCTGTACTTTT
















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|211277902|gb|FL449020.1|FL449020
EST:     TTT-CCCTGCATGTA-TAAGTACCTCATGTCTGCATTCGACATCCCAGAG                         GTTATGGCAGTAACTAGAAGTACAATCTGCAAAAAAGGAATAGAGTCCCTT
genomic: TTTACCCTGCATGTATTAAGTACCTCATGTCTGCATTCGACATCCCAGAGgttcttccat ... tctctttcagGTTATGGCAGTAACTAGAAGTACAATCTGCAAAAAAGGAATAGAGTCCCTT
EST: gi|67013703|gb|CO442452.1|CO442452
EST:     TTTACCCTGCATGTATTAAGTACCTCATGTCTGCATTCGACATCCCAGAG                         GTTATGGCAGTAACTAGAAGTACAATCTGCAAAAAAGGAATAGAGTCCCTT
genomic: TTTACCCTGCATGTATTAAGTACCTCATGTCTGCATTCGACATCCCAGAGgttcttccat ... tctctttcagGTTATGGCAGTAACTAGAAGTACAATCTGCAAAAAAGGAATAGAGTCCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctgattgttgttgttgtttgccgcttacgccgtatatattctctctttcagGTTATGGCAGTAACTAGAAGTACAATCTGCAAAAAAGGAATAGAGTCCCTTCCCAGGGGAGGTGCCATCATCTATTATGTCTGTGTTTTCCTGTACTTCT
                         cgcttac  putative branch site (score: 3)
                                      tatattctctctttc  putative PPT
                                    tatatattct  TA-rich tract