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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttctggaaaccacacccctgtaatagttgcttataataaattttctgacactcttttgtgctctcccatgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTACAG

Basic information

species Glycine max
transcript GLYMA08G18560.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18560.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0006g02010.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------gtacttctggaaaccacacccc-tgtaatagttgcttata---ataaattttctgacactcttttgtgctctcccatga-aacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTACAG
                                  | |||| || |    |       || || |||     | |    | | ||  || ||   |||   ||        ||  |||||||||| | ||||||||| || |||||||||||||| ||||| |||||| | |||
gtatttgttatttactccttttgtgtgtgtagctgcacttttgcatttgaggtttgatgaaaaagtaagaaacatgtgttagttacctaacttccttcaatggctgtgggtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG
















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|6069887|gb|AW099483.1|AW099483
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|6069892|gb|AW099486.1|AW099486
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|6914456|gb|AW395986.1|AW395986
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|207841488|gb|GD809326.1|GD809326
EST:     AGGACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGTACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: AGGACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|27426337|gb|CA937857.1|CA937857
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|6072271|gb|AW101658.1|AW101658
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|4313320|gb|AI460439.1|AI460439
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|58014741|gb|CX701483.1|CX701483
EST:     GACCATGAACGTGCTTACTTGGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGTTTTTCGGCTTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|8827757|gb|BE211487.1|BE211487
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|254324562|gb|GR833987.1|GR833987
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|192313317|gb|FK005089.1|FK005089
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|6914757|gb|AW396287.1|AW396287
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAATGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|15202918|gb|BI425686.1|BI425686
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|4303380|gb|AI443468.1|AI443468
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|31472363|gb|CD414391.1|CD414391
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|193451500|gb|FK420608.1|FK420608
EST:     ATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: ATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|11412304|gb|BF424315.1|BF424315
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|7639980|gb|AW734290.1|AW734290
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|10233243|gb|BE802131.1|BE802131
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|254324561|gb|GR833986.1|GR833986
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|31309242|gb|CD394445.1|CD394445
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|19348889|gb|BM893421.1|BM893421
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|4298166|gb|AI442722.1|AI442722
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTC
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTC
EST: gi|192313316|gb|FK005088.1|FK005088
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|31305685|gb|CD390888.1|CD390888
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|10233289|gb|BE802177.1|BE802177
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
EST: gi|6914693|gb|AW396223.1|AW396223
EST:     GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAG                         CAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA
genomic: GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgtacttctgg ... catgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatagttgcttataataaattttctgacactcttttgtgctctcccatgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTACAG
                     ttctgac  putative branch site (score: 2)
                             ctcttttgtgctctcc  CT-rich tract
     ttgcttataataaatt  TA-rich tract
















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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttctggaaaccacacccctgtaatagttgcttataataaattttctgacactcttttgtgctctcccatgaaacagCAAGGCGGAGAGAAGCCTAAGGGACCACTTGAGGCTCTTCGGCCTAAATTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC