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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttttctcttttttttcagaattaatttagtgttttaggcataaaataccaaaattgttgtattttcccagGCATTTGAATGGCACCGTTCTTGGATCTTTCGTGCGGCCAGCTGTTCTGATAACTGATGCTTACAATGCTTTGAACAACCAAGGCTATAGAAAAAAGCAG

Basic information

species Zea mays
transcript GRMZM2G036050_T05
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G036050_T05 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g39590.1 (Oryza sativa), 3'ss of exon 4
gttagtttttctcttttt--tttcagaattaatttagtgtt---ttaggcataaaataccaaaattgttgtattttcccagGCATTTGAATGGCACCGTTCTTGGATCTTTCGTGCGGCCAGCTGTTCTGATAACTGATGCTTACAATGCTTTGAACAACCAAGGCTATAGAAAAAAGCAG
||||  |  |  |||| |  |||     | | |||||| ||   ||    |  |||||  || |    |||  ||| |||||||||||||||| || | ||||||||| || || |||||||||||||||||||||||||| |||||||| ||||||||||| | ||| | ||   |||||
gttaaatccttcctttgtcatttacttgtcattttagttttctctttattagcaaataataacagcaatgtgcttttccagGCATTTGAATGGTACTGCTCTTGGATCATTTGTACGGCCAGCTGTTCTGATAACTGATGCATACAATGCCTTGAACAACCATGTCTACAAAAGGCAGCAG

upper sequence: GRMZM2G036050_T05 (Zea mays), 3'ss of exon 4
lower sequence: Vv16s0050g00590.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------gttagtttttctcttttttttcagaattaatttagtgttt-------taggcataaaataccaaaattgttgta-----ttttcccagGCATTTGAATGGCACCGTTCTTGGATCTTTCGTGCGGCCAGCTGTTCTGATAACTGATGCTTACAATGCTTTGAACAACCAAGGCTATAGAAAAAAGCAG
                                  ||    ||||    || ||||  | || || ||    ||        || |||  ||  | || | ||  | |      || |  ||||| ||||||||| || ||| | | |||||| || ||||| |||||| | ||||| ||||| || |||||||||||||| ||    | ||||    |   |
gtgagccttaatttgctagttgcaactacctgcagtggacttttagacttcttttatgcataaaatttacattcatgtaagtaagcaagaataagcatacttagtattgcggtttatttcagGCTTTTGAATGGAACTGTTTTAGAATCTTTTGTTCGGCCTGCTGTTTTAATAACAGATGCCTATAATGCTTTGAACAATCAGCCTTCTAGACGCCAAAGG
















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|31361140|gb|CD445497.1|CD445497
EST:     GATGGGGAGGATGTTGTGTATGCTGTTGACTTCAACCATCGGAAAGAGAG                         GCATTTGAATGGCACCGTTCTTGGATCTTTCGTGCGGCCAGCTGTTCTGAT
genomic: GATGGGGAGGATGTTGTGTATGCTGTTGACTTCAACCATCGGAAAGAGAGgttagttttt ... attttcccagGCATTTGAATGGCACCGTTCTTGGATCTTTCGTGCGGCCAGCTGTTCTGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaattaatttagtgttttaggcataaaataccaaaattgttgtattttcccagGCATTTGAATGGCACCGTTCTTGGATCTTTCGTGCGGCCAGCTGTTCTGATAACTGATGCTTACAATGCTTTGAACAACCAAGGCTATAGAAAAAAGCAG
   aattaat  putative branch site (score: 3)
                                            tattttccc  putative PPT
     ttaatttagtgtttta  TA-rich tract