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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGACCAATGAGGTTGGAAGGTCATTATTTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacgcattcctctccaagatgtatctgcagttactataagagtttgaggttctgaccaaaaaaataatagagaaatatgttcacatccttgaga...

Basic information

species Zea mays
transcript GRMZM2G155962_T03
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G155962_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os04g32150.1 (Oryza sativa), 5'ss of exon 6
ATGACCAATGAGGTTGGAAGGTCATTATTTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacgcattcctct-ccaagatgtatctgcagttactataagagtttgaggttctgaccaaaaaaataatagagaaatatgttcacatc--cttgaga----
||||| ||||||||||| |||||||||||  | ||||| ||||||||||||| |||| ||||||| |||  |||||||||||||   |||||||||| ||| |||| || |||| |    |||    | |    |||| |    |   | |||    || | | | || |     || |||    
ATGACAAATGAGGTTGGGAGGTCATTATTCGCTAAGGCTGGAGAACTTGGAGCACCAGTTGGAATCATGGTGATGAAGgtaaaa--tgcattcctctgccacgatgcat-tgcaatgtgcatagacttgtc---ttcttagggtactcacaatgtgcaagtgt-tacatagtagtttaagatttt
















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|93284051|gb|EB676315.1|EB676315
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|60397566|gb|DN230382.1|DN230382
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|20507977|gb|BQ279847.1|BQ279847
EST:     TTTCGAAGGCAGGGGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|76909087|gb|DV163216.1|DV163216
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|101390398|gb|EB817133.1|EB817133
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|88748896|gb|DY533037.1|DY533037
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|211322964|gb|FL249422.1|FL249422
EST:     TTTCGAAGGCAGGGGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|78090807|gb|DV519181.1|DV519181
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|26558292|gb|CA830527.1|CA830527
EST:     TTTCGAAGGCAGGGGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|76909089|gb|DV163217.1|DV163217
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
EST: gi|60357568|gb|DN224541.1|DN224541
EST:     TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAG                         GGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT
genomic: TTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacg ... gtgtatgcagGGAGTTGGTCCATATATTCAAGAAATAGAGGAACTGTGTAGGGATTATCCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGACCAATGAGGTTGGAAGGTCATTATTTTCGAAGGCAGGAGAACTTGGAGTACCACTTGGAATAATGACGATGAAGgtaaaagacgcattcctctccaagatgtatctgcagttactataagagtttgaggttctgaccaaaaaaataatagagaaatatgttcacatccttgaga

- - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagaaata