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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatatgttttgaggagtattttaaggtgattaggtgaatattacttttcaccttattactttactaatttcttagtttgtaataggataaattttgcagGTCTATTGATTGCAAGTACTTCGACTTTGGGACTGGCTCATGCCCCTTCGGAACAAGTTGTTTCTATAAG

Basic information

species Zea mays
transcript GRMZM2G395842_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G395842_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g21390.1 (Oryza sativa), 3'ss of exon 3
acatatgttttgaggagtattttaa--ggtg-attaggtgaatattacttttcaccttattactttactaatttcttagtttgtaataggataaattttgcagGTCTATTGATTGCAAGTACTTCGACTTTGGGACTGGCTCATGCCCCTTCGGAACAAGTTGTTTCTATAAG
       ||||  | | |||   |   | |  |||  ||||  | |  |||     | ||    |||      |     || |    | | | | | ||||||||||||||| |||||||||||||| ||||| |||||  | || ||||| ||  |||| |||||||| |||
---gcccttttctgaaatatccaagctgatatatttcgtgaggagtgatttatgtttaatactattatgtccctgaatattcgaggaatgtttactattgcagGTCTATTGACTGCAAGTACTTCGATTTTGGAACTGGTACTTGTCCCTTTGGGTCAAGCTGTTTCTACAAG
















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|76020200|gb|DT947370.1|DT947370
EST:     TCAAAGGAAGAGAAAGAGGAGATCACTGAAAGCTACAAATCCAAGCTCAA                         GTCTATTGATTGCAAGTACTTCGACTTTGGGACTGGCTCATGCCCCTTCGG
genomic: TCAAAGGAAGAGAAAGAGGAGATCACTGAAAGCTACAAATCCAAGCTCAAgtaagacttg ... aattttgcagGTCTATTGATTGCAAGTACTTCGACTTTGGGACTGGCTCATGCCCCTTCGG
EST: gi|67020621|gb|CO449370.1|CO449370
EST:     TCAAAGGAAGAGAAAGAGGAGATCACTGAAAGCTACAAATCCAAGCTCAA                         GTCTATTGATTGCAAGTACTTCGACTTTGGGACTGGCTCATGCCCCTTCGG
genomic: TCAAAGGAAGAGAAAGAGGAGATCACTGAAAGCTACAAATCCAAGCTCAAgtaagacttg ... aattttgcagGTCTATTGATTGCAAGTACTTCGACTTTGGGACTGGCTCATGCCCCTTCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcaccttattactttactaatttcttagtttgtaataggataaattttgcagGTCTATTGATTGCAAGTACTTCGACTTTGGGACTGGCTCATGCCCCTTCGGAACAAGTTGTTTCTATAAG
                 tactaat  putative branch site (score: 1)
        ttattactttactaat  TA-rich tract