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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttaacttacatgtaccgtttccatctggggatgtgttcagtgttgttagcaaacaacaacaaccataattgatcttggtataacttgtgcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTGCTCGTGAAATTTCTTCTGAGCCACCTTATACGGAATATGTGTCCACTCG

Basic information

species Zea mays
transcript GRMZM5G864414_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G864414_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g02550.2 (Oryza sativa), 3'ss of exon 8
atttaacttacatgtaccgtttccatctggggatg----tgttcagtgttgttagcaaacaacaacaaccataattgatcttggtataacttgtgcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTGCTCGTGAAATTTCTTCTGAGCCACCTTATACGGAATATGTGTCCACTCG
   |||||||  || |   | | ||  ||||  ||    || | | ||||||||| |   | |||| | | || ||| || ||  |    || ||  ||||||||||||||||| ||||||||||| |||||||||||||| |||||||| ||||||||||| ||||||||||| ||||| || || ||||||||||| |||||
-gctaacttatctgcaatatgttcagttgggattgaccatgattattgttgttagaatttaccaactatctta-ttggtcctgtaac--tttatgatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTGCTCGTGAGATTTCTTCTGAACCACCATACACAGAATATGTGTCAACTCG
















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|31350095|gb|CD434452.1|CD434452
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
EST: gi|31353144|gb|CD437501.1|CD437501
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
EST: gi|18963939|gb|BM660715.1|BM660715
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
EST: gi|111991032|gb|EE331915.1|EE331915
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttagcaaacaacaacaaccataattgatcttggtataacttgtgcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTGCTCGTGAAATTTCTTCTGAGCCACCTTATACGGAATATGTGTCCACTCG
                                  gtataac  putative branch site (score: 3)
                     ataattgat  TA-rich tract