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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttatagctatctagtggcatgacattgacagttttatgctttggcgaactaaacaaactttacatcctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAAGTTGTTAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTA

Basic information

species Zea mays
transcript GRMZM2G154221_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154221_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g12080.3 (Oryza sativa), 3'ss of exon 3
--------------------gtaagctttatagctatctagtggcat-----gacattgacagtttta--tgct-ttggcgaactaaacaaactttacatcctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAAGTTGTTAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTA
                    | |   |||  |  | ||   ||||||      |||  | |||| |    || |  |  | || |||  ||| |  | | |||||||||||| |||||||| |||||||| ||||| ||||||||||||||||||||||| |||||||| || |||||||||||||| |||||||||||||| |||||||
gtaagatctcaagctatgctgaagcttttggatttttcagatggcatccctctacagggccagtctagactgttgctaactaattaactaaattggataccctgttgcagGTGCAGAATTTGATAGAGCGCTGTCTACAGCTATACATGAACAAAGGAGAGGTTGTTAGGACGCTTTCTACTCGTGCAAGAATAGAACCTGGTTTCACTA
















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|101393686|gb|EB818775.1|EB818775
EST:     CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTT                         GTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
genomic: CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTTgtaagcttta ... cctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
EST: gi|33467119|gb|CF244168.1|CF244168
EST:     CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTT                         GTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
genomic: CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTTgtaagcttta ... cctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
EST: gi|50327503|gb|CO522629.1|CO522629
EST:     CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTT                         GTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
genomic: CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTTgtaagcttta ... cctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
EST: gi|78118653|gb|DV537037.1|DV537037
EST:     CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTT                         GTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
genomic: CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTTgtaagcttta ... cctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
EST: gi|78084282|gb|DV512675.1|DV512675
EST:     CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTT                         GTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA
genomic: CTATAGCTAGTAATGACAGTAAGAAGGTGTCTCGCGAAGACATTGAACTTgtaagcttta ... cctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacattgacagttttatgctttggcgaactaaacaaactttacatcctgttgcagGTTCAGAATTTAATAGAGCGTTGTCTTCAGCTATACATGAACAAAGGAGAAGTTGTTAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTA
                          aactaaa  putative branch site (score: 2)
                                            tcctgtt  putative PPT
         agttttat  TA-rich tract