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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATGACCATAGCTGCAAATGCTGGCATTGATGGAGCTATAGTCATAGGGAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctgtttaactatgaacatactaaaagcgtgtggctccgacgagtaccatattccgtcgtgtacatcacccttgcaaagatactcctagaggctatatccaaatttctaaagcaacataacagtccttagtgaatcagtgatcactgtattttatttttattttttgccaactgcag

Basic information

species Zea mays
transcript GRMZM2G074790_T02
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G074790_T02 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os05g46290.1 (Oryza sativa), 5'ss of exon 15
TTGATGACCATAGCTGCAAATGCTGGCATTGATGGAGCTATAGTCATAGGGAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctgtttaactatgaacatactaaaagcgtgtggctccgacgagtaccatattccgtcgtgtacatcacccttgcaaagatactcctagaggctatatccaaatttctaaagcaacataacagtccttagtgaatcagtgatcactgtattttatttttattttttgccaactgcag
|||||||| |||||||||||||||||||||||||| | | | ||||| |||||||| |||||||||||  | || | | |||||||||||||||||| |||||||| ||||||| |||||    |  |   |     |||||   || |  |  || ||  ||    |  ||  |  ||   |   | ||   | |||||||  ||| ||  ||  |  | ||||  | || ||| ||| ||| |              |||  |  | |||||||||| |||
TTGATGACTATAGCTGCAAATGCTGGCATTGATGGTGGTGTGGTCATTGGGAAGCTAATTGAACAAGATAATCTTAATATGGGCTATGATGCAGCAAGAGgtttgtgctgtttagctatg----ttttggcattac-tggctgtaacaaaaattatgttgagttcctt-tattgcggtttagatagtccttgaaaaggctat--ccatatgccttcaaaagcatagtaatcttta-tgattcattagctg---------attcctgctctttgccaactacag
















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|211267531|gb|FL446292.1|FL446292
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCGAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|5688540|gb|AI941555.1|AI941555
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCGAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|67028320|gb|CO457069.1|CO457069
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATTAAGGCCGGCATCATCGATCCGGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|5006206|gb|AI712268.1|AI712268
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCGAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|31997582|gb|CD661667.1|CD661667
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|76911014|gb|DV164129.1|DV164129
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|211181730|gb|FL012621.1|FL012621
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCGAGGCCGGCATCATCGATCCCGTGAAGG
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGG
EST: gi|211184128|gb|FL012625.1|FL012625
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|60394409|gb|DN227279.1|DN227279
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|24764724|gb|CA399887.1|CA399887
EST:     GAAGCTGATTGAACAAGAGGGCCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|149072567|gb|EE044214.2|EE044214
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGTTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|74242337|gb|DT650251.1|DT650251
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|8666121|gb|BE186937.1|BE186937
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCGAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|61118980|gb|DN559941.1|DN559941
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|71759820|gb|DR957757.1|DR957757
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|78117876|gb|DV536263.1|DV536263
EST:     GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGTTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
EST: gi|31352804|gb|CD437161.1|CD437161
EST:     GAAGCTGATTGAACAAGAGGGCCTCAGTTTGGGCTATGATGCAGCAAAAG                         GGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA
genomic: GAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctg ... ccaactgcagGGGAGTACGTAGACATGATCAAGGCCGGCATCATCGATCCCGTGAAGGTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGATGACCATAGCTGCAAATGCTGGCATTGATGGAGCTATAGTCATAGGGAAGCTGATTGAACAAGAGGACCTCAGTTTGGGCTATGATGCAGCAAAAGgtttgttctgtttaactatgaacatactaaaagcgtgtggctccgacgagtaccatattccgtcgtgtacatcacccttgcaaagatactcctagaggctatatccaaatttctaaagcaacataacagtccttagtgaatcagtgatcactgtattttatttttattttttgccaactgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA