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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttgagctttcctacctatttgttctgtaatttgatattttatttaaaggtgacattttccagtgtgtttttgccctcagTTCTGACTATGAGGACTTCATTAGAGACTTAACAAGACAACTTTGTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAG

Basic information

species Zea mays
transcript GRMZM2G086093_T02
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G086093_T03 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os03g05330.1 (Oryza sativa), 3'ss of exon 27
gtttgttttgagc--tttcctacctatttgttctgtaatttgatattttatttaaaggtgacatttt--------ccagtgtgtttttgccctcagTTCTGACTATGAGGACTTCATTAGAGACTTAACAAGACAACTTTGTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAG
|||||| |||| |  ||| ||| | |||| | |||  ||||||||||||| |||   |||| |||||        | | |||| ||| | |  |||||| || ||||||||||||||||| ||||||||||| ||||| |||||  | ||||| |||||||||||||||||| | ||||| |||||||||
gtttgtgttgaacaatttgctagccatttctactgggatttgatattttagttacgagtgaaatttttacttgttctaatgtgcttt-gtctacagTTCGGATTATGAGGACTTCATTAGGGACTTAACAAGGCAACTCTGTCGACTATCTCCTGCCAGAGTCGACAGCTACTTTGAATCTGCTATCCAG
















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|67025348|gb|CO454097.1|CO454097
EST:     GAGGGCTTGTCTGTGCTCCTCAGCAAGCAGTATTTTGCTTCTGATCGCCG                         TTCTGACTATGAGGACTTCATTAGAGACTTAACAAGACAACTTTGTCGGTT
genomic: GAGGGCTTGTCTGTGCTCCTCAGCAAGCAGTATTTTGCTTCTGATCGCCGgtttgttttg ... ttgccctcagTTCTGACTATGAGGACTTCATTAGAGACTTAACAAGACAACTTTGTCGGTT
EST: gi|67021578|gb|CO450327.1|CO450327
EST:     GAGGGCTTGTCTGTGCTCCTCAGCAAGCAGTATTTTGCTTCTGATCGCCG                         TTCTGACTATGAGGACTTCATTAGAGACTTAACAAGACAACTTTGTCGGTT
genomic: GAGGGCTTGTCTGTGCTCCTCAGCAAGCAGTATTTTGCTTCTGATCGCCGgtttgttttg ... ttgccctcagTTCTGACTATGAGGACTTCATTAGAGACTTAACAAGACAACTTTGTCGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaatttgatattttatttaaaggtgacattttccagtgtgtttttgccctcagTTCTGACTATGAGGACTTCATTAGAGACTTAACAAGACAACTTTGTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAG
    atttgat  putative branch site (score: 5)
                                          tttttgccctc  putative PPT
     tttgatattttattta  TA-rich tract