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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatacatggagttatttatttgttcttttttctttagcttcagttatgagtcatttaaactcagtgtgtctgcttttcaggatggcctatttcttgtaaacaataaccttaatcttgttgaagGAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTGTTCAGAAGGTTCTTAACTGTGACGTAGATGAGGAAAGTGCTTCTGAGCA

Basic information

species Zea mays
transcript GRMZM5G840928_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G840928_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g17610.1 (Oryza sativa), 3'ss of exon 5
gtaatacatggagttattt-atttgttcttttttctttagcttc--agttatgagtcatttaaactcagtgtgtctgcttttcaggatggcctatttcttgtaaacaataaccttaatcttgttgaagGAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTGTTCAGAAGGTTCTTAACTGTGACGTAGATGAGGAAAGTGCTTCTGAGCA
|||  |  ||   || ||| |           | ||| |  ||   | ||||||           |   | |   || | | ||||||||||| || ||| ||| ||||||||||| ||||||||| || |||   ||||||||  ||||||||||||| || |||||||| |||||||| ||||                                           
gtaccatttgacttttttttaaaaaaaaaacatacttgaaattataaattatgaacaggacttgatattttttagtgatctgcagGATGGCCTTTTCCTTATAACCAATAACCTTAGTCTTGTTGAGGGTAACTTGCTTGCCATCCTAACACCAAATGTATACGAGTACAAACGTCTTGTCCAGA-------------------------------------------

upper sequence: GRMZM5G840928_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G38750.1 (Glycine max), 3'ss of exon 6
------------------------gtaatacatggagttatttatttgttcttttttctttagctt--cagttatgagtcatttaaactcagtgtgtctgcttttcaggatggcctatttcttgtaaacaataaccttaatcttgttgaagGAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTGTTCAGAAGGTTCTTAACTGTGACGTAGATGAGGAAAGTGCTTCTGAGCA
                         |   ||| ||  | ||| |  ||| | | ||  || |  ||  || |  ||      | ||| |   || | ||   ||||||||||| || |||||||| |  ||||| ||| | ||||||   ||  |  |  | ||  ||||||||||||||||| |||| || ||||||||||||||||                                           
gtatgtatatagaattttagacatctggcacaaggtctgattaacatgtgcatattctttaactttttcactcttgttctgataaaattt--tgggcct-tgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCCTTAGCTGTTTTAACACCAAATGTCAATGAATATAAGCGTCTTGTTCAGA-------------------------------------------
















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|50323072|gb|CO518198.1|CO518198
EST:     ATATCATGAGGCACGCACGACAGGCTAATATTCCAACTGTTGTGGATGGG                         GAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTG
genomic: ATATCATGAGGCACGCACGACAGGCTAATATTCCAACTGTTGTGGATGGGgtaatacatg ... cttgttgaagGAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgcttttcaggatggcctatttcttgtaaacaataaccttaatcttgttgaagGAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTGTTCAGAAGGTTCTTAACTGTGACGTAGATGAGGAAAGTGCTTCTGAGCA
                                            tcttgtt  CT-rich tract
                            taaacaataa  TA-rich tract