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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgccatgtctgactcacagtctcacacaccttttctgcttaactgatttttctctagtcttaatctgatataatattaaatgtgttcttaatct...

Basic information

species Glycine max
transcript GLYMA13G29400.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G29400.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g37832.1 (Oryza sativa), 5'ss of exon 3
GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagt-tgccatgt-ctgactcacagtctcacacaccttttctgcttaactgatttttctctagtcttaatctgatataatattaaatgtgttcttaatct
| |    |||| || ||||||||||| |||||||||||||| ||||| |||||||| |||||  | || | |     | ||| | | || |  |  ||  |   | ||| |||      ||||   |      ||   |     ||  |   
GGTTTTCTGGAGAGTAATGAGGGTGACCCTGAGTTACTTGTTTTCATCCCgtaagtatgccacttgctaattagatatatcatatatctgtgtt--ttccccactgtttttcttactccaatcaattggtgctttgtgtacaagctcgaaag
















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|193350168|gb|FK317830.1|FK317830
EST:     TCACTTGGAAAGTCAATGAGGGTGATCCTGAGTTACTTGTCTTCTATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTG
genomic: TCACTTGGAAAG-CAATGAGGGTGATCCTGAGTTACTTGTCTTC-ATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTG
EST: gi|11690379|gb|BF598055.1|BF598055
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|207710617|gb|GD691301.1|GD691301
EST:     CTTGGAAAGCAATGAGGGTGATCCTGAAGTTACTTGTACTTAAACATTCC                         ATTTACTTCAG
genomic: CTTGGAAAGCAATGAGGGTGATCCTGA-GTTACTTGT-CTT---CATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAG
EST: gi|193658986|gb|FK602111.1|FK602111
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298178150|gb|HO027533.1|HO027533
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298192219|gb|HO036301.1|HO036301
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|151402759|gb|EV272572.1|EV272572
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298164736|gb|HO014381.1|HO014381
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|21888807|gb|BQ742020.1|BQ742020
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298180957|gb|HO022396.1|HO022396
EST:     GTTCACTTGGAAAGCAATGAGGGTGGTCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298192873|gb|HO033307.1|HO033307
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|208084942|gb|GD882778.1|GD882778
EST:     ATCCTGTGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: ATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298167595|gb|HO012858.1|HO012858
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|192294103|gb|FG986192.1|FG986192
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|8402306|gb|BE057940.1|BE057940
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|192300261|gb|FG987838.1|FG987838
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298171596|gb|HO021188.1|HO021188
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCT                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|254315527|gb|GR825336.1|GR825336
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298169227|gb|HO020587.1|HO020587
EST:     GTTCACTTGGAAAGCAATGAGGGAGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298189728|gb|HO038131.1|HO038131
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298166356|gb|HO008593.1|HO008593
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298175426|gb|HO015059.1|HO015059
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACCTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298179820|gb|HO025035.1|HO025035
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298196871|gb|HO041614.1|HO041614
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298172694|gb|HO019734.1|HO019734
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|20498002|gb|BQ272932.1|BQ272932
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|151393588|gb|EV263463.1|EV263463
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298163228|gb|HO011961.1|HO011961
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|254342187|gb|GR853324.1|GR853324
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298183628|gb|HO028841.1|HO028841
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGTATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|207807095|gb|GD778018.1|GD778018
EST:     CACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTACTTAACATTCC                         ATTTACTTCAG
genomic: CACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGT-CTT--CATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAG
EST: gi|51336638|gb|CO980504.1|CO980504
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|151412116|gb|EV281928.1|EV281928
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
EST: gi|298183208|gb|HO028193.1|HO028193
EST:     GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCC                         ATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA
genomic: GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgcc ... tgcaaaatagATTTACTTCAGATGTCAAGATTAAGAGCATATCCATAGTTGGTGGAGCTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCACTTGGAAAGCAATGAGGGTGATCCTGAGTTACTTGTCTTCATTCCgtaagttgccatgtctgactcacagtctcacacaccttttctgcttaactgatttttctctagtcttaatctgatataatattaaatgtgttcttaatct

- - - - -  AAGCAA