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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaaacaaacatttttatatgttttctgaacttaaccttcgcaatactgatctgagctcttaattctactcattttgtttaattctatctttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATATCCGGTTGAAATTGAAACGGCAAATCATCTTGTTCAATCATTTATTGCA

Basic information

species Zea mays
transcript GRMZM2G154221_T01
intron # 4
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 4
lower sequence: LOC_Os01g12080.3 (Oryza sativa), 3'ss of exon 4
acaaacaaacatttttatatgttttctgaacttaaccttcgcaatactgatc---tgagctcttaatt----ctactcatttt-gtttaattctatctttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATATCCGGTTGAAATTGAAACGGCAAATCATCTTGTTCAATCATTTATTGCA
          || | ||| ||| |    | | |     | || |||    ||   |   || ||||||    || |||||||| |||| || || | || ||||||||||||||||||||| |||||||||||||| || |||||| | ||||||||||| ||||||||||||||| |||| || ||||||||||| |||||| ||||
------tgctatgtctat-tgtatataaagcctccagattgctatatatgtccattagccttttaatttatgctgctcatttttgtttgatactct-ttgatgttcagTATGGCAGAAACTTGAAGAAGAGAACTCTGAATTCTTTCGTGCTTACTATATACGGTTGAAATTGAAAAGGCAGATTATCTTGTTCAACCATTTACTGCA

upper sequence: GRMZM2G154221_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 4
acaaacaaacatttttatatgttttctgaacttaaccttcgcaatactgatctgagctcttaattctactcattttgtttaattc-tatctttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATATCCGGTTGAAATTGAAACGGCAAATCATCTTGTTCAATCATTTATTGCA
    ||   |||| || ||| |||||   || |    |  |        | || |  ||  | ||||    ||  | | |||||  | | |||   |||||||||||||||  | |||||||||||| | || ||||| ||||| ||||||||| || | |||||||||  ||||||  | || |||||||||||| |  |
-attacttgcattcttgtatattttccataccttttataagtggatgcaaactcaagtcccatttctttcaatgctttgtaattgatcttttttaattcagTATGGCAGAAGTTGGAAGAAGAGAACGCTGATTTCTTCAGGGCCTACTATATCAGGCTAAAATTGAAAAAGCAAATACTATTATTCAATCATTTACTTGA

upper sequence: GRMZM2G154221_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G44420.1 (Glycine max), 3'ss of exon 4
acaaacaaacatttttatatgttttctgaacttaaccttcgcaatactgatctgagctcttaattctactcattttgtttaattctatctttatg---ttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATATCCGGTTGAAATTGAAACGGCAAATCATCTTGTTCAATCATTTATTGCA
   ||    |     |  |  |||    |  ||    |   ||    ||  || |  ||| | | |      |||  ||   || | | ||| |    ||||||||||||||| || ||||| |||||| | || ||||||||||| ||||||||| || | ||||| ||| |||||||  | ||||||||||||||  |  |
---aatggcctacactgcagttttatctattttcctttatacatagatgccctcaaatctcattgccttctgtttgattcttttttctttttttaaaattcagTATGGCAGAAGCTGGAAGAGGAGAACACTGATTTCTTTAGGGCCTACTATATCAGGCTAAAATTAAAAAGGCAAATACTTTTGTTCAATCATTTGCTTGA

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:     TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAG                         TATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTCTAGGGCTTACTATA
genomic: TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAGgtgacgtgtt ... ttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
EST: gi|33467119|gb|CF244168.1|CF244168
EST:     TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAG                         TATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
genomic: TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAGgtgacgtgtt ... ttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
EST: gi|50327503|gb|CO522629.1|CO522629
EST:     TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAG                         TATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
genomic: TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAGgtgacgtgtt ... ttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
EST: gi|78118653|gb|DV537037.1|DV537037
EST:     TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAG                         TATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
genomic: TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAGgtgacgtgtt ... ttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
EST: gi|78084282|gb|DV512675.1|DV512675
EST:     TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAG                         TATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA
genomic: TAGAACTCTTTCTACTCGTGCTAGAATAGAACCTGGCTTCACTACTTTAGgtgacgtgtt ... ttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgatctgagctcttaattctactcattttgtttaattctatctttatgttcagTATGGCAGAAACTCGAAGAAGAGAACTCCGAGTTCTTTAGGGCTTACTATATCCGGTTGAAATTGAAACGGCAAATCATCTTGTTCAATCATTTATTGCA
                                     ttctatcttt  CT-rich tract
                          attttgtttaattcta  TA-rich tract