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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTATCTTATACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattcttttggagttactaagcactttgcatgctgctacttgctagtgtaagatttaagctgtgtagttacactatgattccaggcgtagttgcct...

Basic information

species Glycine max
transcript GLYMA17G37730.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G37730.1 (Glycine max), 5'ss of exon 5
lower sequence: AC195874.2_FGT002 (Zea mays), 5'ss of exon 5
-TCTATCTTATACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGta-tgcattcttttggagttacta-agcactttgcatgctgctacttgctagtgtaagatttaagctgtgtagttacactatgattcca-ggcgtagttgcct
 | || || ||||| |||||||| ||||| || || || ||||||||||||||||| ||||||    | | || ||   ||  |  || | |||   |||    ||   | ||| | | |  ||  | || |   |  |  || | |  | | |  |||| |  
GTTTACCTGATACTAGATGAATTTATTCTTGCTGGGGAGCTGCAAGAAACAAGCAAAAAGgtaacataattttctgtcttttttgtagtattttt--tgccagaaccaac-agtatcatacatatacagtttctgtgtatgataaatgtatgtcacagtttct-

upper sequence: GLYMA17G37730.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g03340.t01 (Vitis vinifera), 5'ss of exon 5
-TCTATCTTATACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattcttttggagttactaagcactttgcatgctgctacttgctagtgtaagatttaagctgtgtagttacactatgat-tccaggcgtagttgcct---
 | ||||| ||||||||||| |||||||| || || || || || ||||||||||||||||| ||  || || ||    |  |  |  || ||  || |     || ||  | | |  |||    | | || ||    ||   | ||     ||  |||  |   
GTATATCTAATACTTGATGAGTTCATTCTTGCTGGAGAGCTCCAGGAAACAAGCAAGAAGgtgtgtgtttttctg----ttgtgtgtgctctgt-tgttttggttttctttttttacttttttattttttattttttttagtctgtctttttgtttttgtttttt

upper sequence: GLYMA17G37730.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 6
-TCTATCTTATACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattcttttggagttactaagcactttgcatgctgctacttgctagtgtaagatttaagctgtgtagttacactatgattccaggcgtagttgcct
 | |||||||||||||| ||||||||||| || || || || |||||||||||||| ||||| ||||||  |||    ||||| |    ||  |||  ||  |  |    |  | ||  | |  |||   | || | || | | |    |           
GTTTATCTTATACTTGACGAATTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAAGgtgtgcattagtttt---ttactcatttgttgacat--tgtaaagtcgaggattgagcctgagactg---attttccctgtaacttgcag-----------

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|298196591|gb|HO041334.1|HO041334
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|31474478|gb|CD416506.1|CD416506
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGANACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|120494113|gb|EH222280.1|EH222280
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|151412034|gb|EV281845.1|EV281845
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|16345364|gb|BI970959.1|BI970959
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|298170230|gb|HO018854.1|HO018854
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAA
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAA
EST: gi|38193189|gb|CF922395.1|CF922395
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAGTGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|21602650|gb|BQ612981.1|BQ612981
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|8283304|gb|BE020865.1|BE020865
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|5510121|gb|AI856505.1|AI856505
EST:     TTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: TTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|7795478|gb|AW780875.1|AW780875
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGA
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGA
EST: gi|15200385|gb|BI424322.1|BI424322
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|31312367|gb|CD397570.1|CD397570
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|17519104|gb|BM188146.1|BM188146
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|20448913|gb|BQ253037.1|BQ253037
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|17153474|gb|BM143407.1|BM143407
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGA
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGA
EST: gi|120494291|gb|EH222458.1|EH222458
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|192322713|gb|FK014404.1|FK014404
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGGAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|13478215|gb|BG507779.1|BG507779
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|120494235|gb|EH222402.1|EH222402
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|151412841|gb|EV282653.1|EV282653
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|209699340|gb|BW664059.1|BW664059
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|6916010|gb|AW397540.1|AW397540
EST:     TTCTAGCGGGTGAACTGCAAGATACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: TTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|192297663|gb|FG989582.1|FG989582
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|26269345|gb|CA820408.1|CA820408
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|298169760|gb|HO021120.1|HO021120
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|298187150|gb|HO034299.1|HO034299
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
EST: gi|31462386|gb|CD404414.1|CD404414
EST:     ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGG                         CTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT
genomic: ACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattct ... tgcttgcaggCTATCATTGAGAGAATGGGGGAACTTGAAAAACTAGAATGAAAAATTACTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTATCTTATACTTGATGAATTCATTCTAGCGGGTGAACTGCAAGAAACAAGCAAGAAGGtatgcattcttttggagttactaagcactttgcatgctgctacttgctagtgtaagatttaagctgtgtagttacactatgattccaggcgtagttgcct

- - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG