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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCACAGTATCTCATGACCGATACTTTATAAAGCAAATAGTTAATAGAGTGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaatcgatcccttgatctcttctcttaccctaccctttctgtggctcattgagtgtgatagtatacaatttattttatttttatattttaggat...

Basic information

species Glycine max
transcript GLYMA04G39670.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39670.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv07s0031g01640.t01 (Vitis vinifera), 5'ss of exon 7
TATCACAGTATCTCATGACCGATACTTTATAAAGCAAATAGTTAATAGAGTGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagt-taatcgatcccttgatctcttctcttaccctaccctttctgtggctcattgagtgtgatagtatacaatttattttatttttatattttag--gat
| | ||||| |||||||| |||||||| ||||||||||||||||||||||| || ||| |||| ||||| |   |||| || |||||||| |||||| |||||||| | | |   | |    |      |||| |   |   | ||      | |||   | || |  ||   || ||    | |   ||   |||||   ||
TGTTACAGTGTCTCATGATCGATACTTCATAAAGCAAATAGTTAATAGAGTAATTGAAGTTAAGGATGGGAATTTACAAGACTATGCAGGAGATTACAATgtaagtgtgacctcactccaatttaaacttcttgcatcattttatcacccttttattatttttgtttttaagaaaattggcatgt---taggctttagctaat
















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|209707109|gb|BW653221.1|BW653221
EST:     TGATAGAAGTTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|192312580|gb|FK003274.1|FK003274
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|209707398|gb|BW670650.1|BW670650
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|209724087|gb|BW679984.1|BW679984
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|214008253|gb|DB989795.1|DB989795
EST:     GATAGAAATTAAAGATGGTCA-CATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: GATAGAAATTAAAGATGG-CACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|214009024|gb|DB987103.1|DB987103
EST:     ATAGAAATTAAAGTTTAGG-A-CATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: ATAGAAATTAAAG-AT-GGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|209701953|gb|BW683182.1|BW683182
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|16342504|gb|BI968099.1|BI968099
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|213599543|gb|DB981699.1|DB981699
EST:     GATAGAAATTAAAGATTGGC-CCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: GATAGAAATTAAAGA-TGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|209702699|gb|BW675674.1|BW675674
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|214007852|gb|DB987796.1|DB987796
EST:     GATAGAAATTAAAGAT-TCACTCATACAGGACTATGCAGGTGATTACGAT                         C
genomic: GATAGAAATTAAAGATGGCAC-CATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcag-
EST: gi|214007852|gb|DB987796.1|DB987796
EST:     GATAGAAATTAAAGAT-TCACTCATACAGGACTATGCAGGTGATTACGAT                         C
genomic: GATAGAAATTAAAGATGGCAC-CATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcag-
EST: gi|213591107|gb|DB979354.1|DB979354
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|254327297|gb|GR836906.1|GR836906
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|209725966|gb|BW669740.1|BW669740
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|22524815|gb|BU083626.1|BU083626
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|5760777|gb|AI966140.1|AI966140
EST:     AAAGATGGCACCATACAGGATTATTCAGGTGATTACGAT                         TATTATTTAGAGAAGAATAAT-AAGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: AAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|209704982|gb|BW653272.1|BW653272
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|209699162|gb|BW656175.1|BW656175
EST:     TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
EST: gi|214009791|gb|DB990328.1|DB990328
EST:     TGATAGAAATTAAAGATGACTTCATACAGGATTATGCAGGTGATTACGAT                         TATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG
genomic: TGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaat ... aaaattgcagTATTATTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCACAGTATCTCATGACCGATACTTTATAAAGCAAATAGTTAATAGAGTGATAGAAATTAAAGATGGCACCATACAGGATTATGCAGGTGATTACGATgtaagttaatcgatcccttgatctcttctcttaccctaccctttctgtggctcattgagtgtgatagtatacaatttattttatttttatattttaggat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctaccc