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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggcgcagttctcctgcgctttcgagattttttttttgtcacagaccaatatcattctgatttctgagtatctatgtattaaggtggttttctgttgcagGTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGATTGTGAAGTTCGTCTCTGGGATGCTAAAACATCTCGCTGCACAGCAGAAC

Basic information

species Zea mays
transcript GRMZM2G167886_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G167886_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os09g12550.1 (Oryza sativa), 3'ss of exon 5
gggcgcagttctcctgcgctttcgagattttttttttgtcacagaccaata-------tcattctgatttctgagtatctat-gtattaaggtggttttctgttgcagGTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGATTGTGAAGTTCGTCTCTGGGATGCTAAAACATCTCGCTGCACAGCAGAAC
            |      ||  || |  | ||||     | | | ||||        |  ||    ||| | | ||  |    ||  ||  |  | ||    || |||||||||  |||||    | | |||||||  ||||||| ||||||||||||  ||||||| |||| |||||||||||||| || || ||||  | |  ||
--------caaactgttaattcagaaaaatgttttacaaaaaaaaacaatgttgaattttgtttcacttttttattacttgccataagaaattattgttgcaatgtagGTTAGATATCATCCATTACATCCTGATATCGTTGCTAGCGGAAGTTTGGATAATGAAGTTTGTCTATGGGATGCTAAAACCTCCCGTTGCATTGGATCAC
















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|18385319|gb|BM418518.1|BM418518
EST:     CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTG                         GTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT
genomic: CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTGgtacattacg ... tctgttgcagGTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT
EST: gi|87298785|gb|DY470788.1|DY470788
EST:     CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTG                         GTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT
genomic: CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTGgtacattacg ... tctgttgcagGTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT
EST: gi|78092063|gb|DV520437.1|DV520437
EST:     CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTG                         GTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT
genomic: CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTGgtacattacg ... tctgttgcagGTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT
EST: gi|22489334|gb|BU049257.1|BU049257
EST:     CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTG                         GTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT
genomic: CTGGGAAATGCTTGAATGTACTGCTTGGACATCACCGCACTCCATGGGTGgtacattacg ... tctgttgcagGTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaatatcattctgatttctgagtatctatgtattaaggtggttttctgttgcagGTTAGATTCCATCCTCAGCGTTCTGATATTCTTGCTAGTGGAAGTTTGGATTGTGAAGTTCGTCTCTGGGATGCTAAAACATCTCGCTGCACAGCAGAAC
         ttctgat  putative branch site (score: 3)
                                          ttttctgtt  putative PPT
                       tatctatgtattaa  TA-rich tract