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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGCTCAAAACACTTGAAAGGTACCAAAAGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagtaatgccattgtttataacattatagaaataacatctcttaagaaatttcacttaggaaagtcttattatattgctagaacttgattattgccaacttataataaaatatatcttatgcaaattaattccaatttgttatttttcatttgtcatttgcttttgtatagcag

Basic information

species Glycine max
transcript GLYMA19G04320.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G04320.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0083g01050.t01 (Vitis vinifera), 5'ss of exon 2
CATGCTCAAAACACTTGAAAGGTACCAAAAGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgta-cgtagtaatgccattgtttataacattatagaaataacatctcttaagaaatttcacttaggaaagtcttattatattgctagaacttgattattgccaacttataataaaatatatcttatgcaaattaattccaatttgttatttttcatttgtcatttgcttttgtatagcag
||||||||| ||||| ||||| |||||||| ||||| ||||||||||||||||||||| ||| ||| ||||||||||| || | || |||||| | | | | ||| | ||||||| | | | | | | | | |||| | | | | ||| ||
CATGCTCAAGACACTCGAAAGATACCAAAAATGCAGTTATGGTGCAGTGGAAGTCAGCCGACCCTCCAAGGAGCTTGAGgtggtttaattattatgttgtttctgttaat-tgagaatgatttctcttagtacctgctatacaaggcaac--aaatttattagcaca-ccaaagaatttgaaa----------------------------------------------------------------------------
















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|207818288|gb|GD792349.1|GD792349
EST:     GTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: GTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|193537347|gb|FK495838.1|FK495838
EST:     TCAGCAGACCTGGCAAAGAGCTTGAGCAG                       
genomic: TCAGCAAACCTGGCAAAGAGCTT--G-AGgtacgtagta ... tgtatagc
EST: gi|207806384|gb|GD777391.1|GD777391
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|207744988|gb|GD716784.1|GD716784
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|193528213|gb|FK487747.1|FK487747
EST:     CAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: CAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|193485974|gb|FK452161.1|FK452161
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTATCGTGAGTACTTGAAGCTGAAAGCAAGAT
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGAT
EST: gi|208166942|gb|GD962004.1|GD962004
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGCAG                       
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTT--G-AGgtacgtagta ... tgtatagc
EST: gi|208282760|gb|GE074670.1|GE074670
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|193508903|gb|FK465499.1|FK465499
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGTAAGCT
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTG-AAGCT
EST: gi|208171464|gb|GD971889.1|GD971889
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAG
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAG
EST: gi|208197576|gb|GD999805.1|GD999805
EST:     CAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: CAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|208071166|gb|GD868441.1|GD868441
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|18733553|gb|BM527677.1|BM527677
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTGAAGCTGAAAGCAAGATTTGAATCTCTTCAA
EST: gi|193633969|gb|FK581091.1|FK581091
EST:     AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAG                         AGCAGCTACCGTGAGTACTTGTAAGCT
genomic: AGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagta ... tgtatagcagAGCAGCTACCGTGAGTACTTG-AAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGCTCAAAACACTTGAAAGGTACCAAAAGTGCAGCTATGGTGCAGTGGAAGTCAGCAAACCTGGCAAAGAGCTTGAGgtacgtagtaatgccattgtttataacattatagaaataacatctcttaagaaatttcacttaggaaagtcttattatattgctagaacttgattattgccaacttataataaaatatatcttatgcaaattaattccaatttgttatttttcatttgtcatttgcttttgtatagcag

- - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT