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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttttctggcttcactttgccctaacaaattgatgatattctcctgcagttacattctttgctcgttttaacgggtgttatatgtgcagtgggt...

Basic information

species Zea mays
transcript GRMZM2G174286_T03
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 8
lower sequence: Vv01s0010g01740.t01 (Vitis vinifera), 5'ss of exon 7
GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctt--tttctggcttcactttgccctaacaaattgatgatattctcctgcagttacat-tctttgctcgttttaacgggtgttatatgtgcagtgggt
|||| ||  | ||||||||||| |||||| |||| ||||||||||||||| ||   | | ||| | | |  |    |  |  | |  ||  |||  |||| |  || || |  ||||       ||    ||  | |   ||    |  
GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAGgtaatctcagtatttggttgcccactaaaatttctgaatcttggaatta-cctgaatgtatatatggttgcagcaggaaatctttggcaaagacgcctctg--
















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|93284395|gb|EB676659.1|EB676659
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|149112907|gb|EE295706.2|EE295706
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|88754539|gb|DY538680.1|DY538680
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|24765679|gb|CA400838.1|CA400838
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|71300276|gb|DR786208.1|DR786208
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|28985354|gb|CB350599.1|CB350599
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|78106688|gb|DV525106.1|DV525106
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|45846980|gb|CN070923.1|CN070923
EST:     GTGTATCCCTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCCAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|101383586|gb|EB813848.1|EB813848
EST:     TTGTTCTTTATGGAGGAAG                         G-TGTTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAA
genomic: TTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTG-TTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAA
EST: gi|18174253|gb|BM349641.1|BM349641
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|67017793|gb|CO446542.1|CO446542
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|67020535|gb|CO449284.1|CO449284
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|37383767|gb|CF628916.1|CF628916
EST:     GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|211215684|gb|FL434860.1|FL434860
EST:     TTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAG                         GTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: TTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
EST: gi|31364203|gb|CD448558.1|CD448558
EST:     CTATGGAGGAAG                         CTTGTTCATCATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA
genomic: CTATGGAGGAAGgtaacctttt ... gtttctgtagGTTGTTCATGATGTTGCAGCGTTTTCCTGTAGAATCAAAAGGAAGACGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGTATCACTATTTGCAGCCCTCGGGTTTGTTCTCTATGGAGGAAGgtaacctttttctggcttcactttgccctaacaaattgatgatattctcctgcagttacattctttgctcgttttaacgggtgttatatgtgcagtgggt

- - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - GGAGGA