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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGGCTGCTGGAGTGAAGCACATTGTGTTAGTAGGGTCTATGGGTGGAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatgttttctcctttatttctgaactacctccctcctagcattctgccattgcttttatatgattagagcttgcaagtcatcttaatgcaaaat...

Basic information

species Glycine max
transcript GLYMA07G15960.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15960.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G068244_T01 (Zea mays), 5'ss of exon 4
CCAAGGCTGCTGGAGTGAAGCACATTGTGTTAGTAGGGTCTATGGGTGGAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatgttttctcctttatttctgaactacctccctcctagcattctgccattgcttttatatgattagagcttgcaagtcatcttaatgcaaaat
| || ||||||||||||||||| |||||| | || || |||||||| |||||  | | |||||||||  |||||||| |||||||||| |||||| |||| ||  |   |||  |  ||     |   | ||  |  | |    ||| |   | ||   |  |  |||||  || |  |  |  | |           
CTAAAGCTGCTGGAGTGAAGCATATTGTGCTGGTGGGATCTATGGGAGGAACAAATCCTAACCATCCGCTGAACAGCATGGGTAATGGCAATATACTGgtaagctaaaatttggctctt--ccataggcaactactattcacaaattgtagaagtgggatctt--gattattgcatatatctgctatag---------

upper sequence: GLYMA07G15960.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0007g00530.t01 (Vitis vinifera), 5'ss of exon 4
CCAAGGCTGCTGGAGTGAAGCACATTGTGTTAGTAGGGTCTATGGGTGGAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatgttttctcctttatttctgaactacctccctcctagcattctgccattgcttttatatgattagagcttgcaagtcatcttaatgcaaaat
| ||  |||| ||||||||||| |||||||| || ||||||||||| ||||| ||||| |||||||| |||||||||||||| |||||||||||  ||||| || ||  ||| |  ||| | |    |  |   |   |      |       | | | | || |   |  |  |      |||| || ||| |   |
CAAAAACTGCAGGAGTGAAGCATATTGTGTTGGTTGGGTCTATGGGAGGAACAGACCTAAACCATCCCTTGAACAGCTTGGGAAATGGGAATATCCTGgtttgtgattcttttttatttttgttcagaaaattacttactctctttaacaatttgggtgtcatgtttgtgaaaatgagttctcatttttatgaatgct
















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|4313549|gb|AI460668.1|AI460668
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|8285026|gb|BE022585.1|BE022585
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|192323796|gb|FK015607.1|FK015607
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|193519195|gb|FK474960.1|FK474960
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|6095017|gb|AW119684.1|AW119684
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|31473809|gb|CD415837.1|CD415837
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCTATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|208080716|gb|GD873278.1|GD873278
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|193644244|gb|FK590339.1|FK590339
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|120530205|gb|EH258339.1|EH258339
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|209722162|gb|BW672387.1|BW672387
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|209711638|gb|BW671349.1|BW671349
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|22932949|gb|BU550088.1|BU550088
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|22522578|gb|BU081389.1|BU081389
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|192305319|gb|FG994015.1|FG994015
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATTTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|31475468|gb|CD417496.1|CD417496
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|15288058|gb|BI471949.1|BI471949
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|13563514|gb|BG551734.1|BG551734
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|18719000|gb|BM523126.1|BM523126
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|193695809|gb|FK636059.1|FK636059
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|15204650|gb|BI427418.1|BI427418
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|15204560|gb|BI427328.1|BI427328
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|208327992|gb|GE119868.1|GE119868
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCAT
EST: gi|58016121|gb|CX702863.1|CX702863
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|192333007|gb|FK024656.1|FK024656
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|209725254|gb|BW672729.1|BW672729
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|214006672|gb|DB987554.1|DB987554
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|209710151|gb|BW658900.1|BW658900
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|5175554|gb|AI759887.1|AI759887
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatg ... ttgcttgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAAGGCTGCTGGAGTGAAGCACATTGTGTTAGTAGGGTCTATGGGTGGAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTGgttagtaatgttttctcctttatttctgaactacctccctcctagcattctgccattgcttttatatgattagagcttgcaagtcatcttaatgcaaaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccctc