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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttattttctgcatgcaccagtttctatttggttcaaaagaaagccatttatgtaagagttgtttcaactgatattagtgcttgtactgcctattgcagGAAATCTATGATAAACAAAAAGAACTTATTTTACTTGGAGAGCGAGTTGTACTTGTAACACTTGGGTTTGACCTTAATATTAACCATGCCTATAAGCCCT

Basic information

species Zea mays
transcript GRMZM2G377311_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 4
-------gtttattttctgcatgcaccagtttctatttggttcaaaagaaagccatttatgtaagagttgtttcaactgatattagtgcttgtactgcctattgcagGAAATCTATGATAAACAAAAAGAACTTATTTTACTTGGAGAGCGAGTTGTACTTGTAACACTTGGGTTTGACCTTAATATTAACCATGCCTATAAGCCCT
       |   ||| |||| | | |    ||| | ||   | ||  ||  |   ||||      |  | | || ||   ||      |  |||| |      |||||||| | |||||| ||||||||||||||||||||||||  |||||||||||||||| ||| |||||||||||  | ||| |  | ||| | || ||||| |
tgctttgggagattgtctggacggagttatttttcttcc-tgcaccaggcaatgatttccactgggat-gctttaatgaatg-----gtctgtaattgtctctgcagGAAGTATATGATCAACAAAAAGAACTTATTTTACTTGCGGAGCGAGTTGTACTTGCAACTCTTGGGTTTGATTTGAATGTGCATCATCCATACAAGCCTT

upper sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
gtttattttctgcatgcaccagtttctatttggttcaaaagaaagccatttatgtaagagttgtttcaactgatattagtgcttgtactgcctat------tgcagGAAATCTATGATAAACAAAAAGAACTTATTTTACTTGGAGAGCGAGTTGTACTTGTAACACTTGGGTTTGACCTTAATATTAACCATGCCTATAAGCCCT
       |   | |   ||    || |  ||| || ||      |    |  | | |   || |  |     || ||  | | | |  |    ||      |||||||  | |||||  | || || ||| | ||||||||||||||| | ||||||||||  |||||||| ||||| |||||| |  ||||| | ||||| ||| 
------ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
















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|61119518|gb|DN560479.1|DN560479
EST:     TTATTAATAAGAATGATCCTAAGGCTAGTCAGAGAATCAAGCAACAGAAG                         GAAATCTATGATAAACAAAAAGAACTTATTTTACTTGGAGAGCGAGTTGTA
genomic: TTATTAATAAGAATGATCCTAAGGCTAGTCAGAGAATCAAGCAACAGAAGgtaatggtgt ... cctattgcagGAAATCTATGATAAACAAAAAGAACTTATTTTACTTGGAGAGCGAGTTGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatttatgtaagagttgtttcaactgatattagtgcttgtactgcctattgcagGAAATCTATGATAAACAAAAAGAACTTATTTTACTTGGAGAGCGAGTTGTACTTGTAACACTTGGGTTTGACCTTAATATTAACCATGCCTATAAGCCCT
                      aactgat  putative branch site (score: 3)
                         tgatatta  TA-rich tract