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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGAGAGATGGATTGTTAATCTCATCCGGAGCTCAAAGCTTGATGCCAAAATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaacattgattattgactcaatagataagggcgtttatagcttcctactgtattgtaccattctgactcactatgtagaccacattcttctgtttatgttgtgtgtcatcattttcatgaccattaatcttatactatatctgcag

Basic information

species Glycine max
transcript GLYMA10G16090.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G16090.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 5'ss of exon 7
CTGAGAGATGGATTGTTAATCTCATCCGGAGCTCAAAGCTTGATGCCAAAATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaacattgattattgactcaatagataagggcgtttatagcttcctactgtattgtaccattctgactcactatgtagaccacattcttctgtttatgttgtgtgtcatcattttcatgaccattaatcttatactatatctgcag
| |||||||||||||| || || ||||| | |||||||||||||||||| ||||| || ||  | ||| | || |||||||| |||| ||| |  || ||||||||  |    | |||       |||  || |   | ||  ||   | ||||  | |  |    ||    ||   |||| ||                                                                    
CCGAGAGATGGATTGTGAACCTAATCCGCACCTCAAAGCTTGATGCCAAGATTGATTCTGAGTCAGGAACTGTAATCATGGAGCCTACTCAGCCCAACGTgtaagtagaataagctta-------aatctatgatatcattcgta---ttctacaatctaatcttgtttccgctt--tatgcag--------------------------------------------------------------------
















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|209703908|gb|BW661598.1|BW661598
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|17401617|gb|BM178399.1|BM178399
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAACAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|192314055|gb|FK008795.1|FK008795
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|208298299|gb|GE095488.1|GE095488
EST:     CCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: CCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|58015713|gb|CX702455.1|CX702455
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|209696629|gb|BW666925.1|BW666925
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|193403478|gb|FK366848.1|FK366848
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTA-TCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAAACGGACNCACTTAC
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAA-CGGACGCACTTAC
EST: gi|209697045|gb|BW667035.1|BW667035
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|209707122|gb|BW661576.1|BW661576
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|193434366|gb|FK401092.1|FK401092
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|31308156|gb|CD393359.1|CD393359
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAACAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|6481581|gb|AW200852.1|AW200852
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGC
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGC
EST: gi|11274645|gb|BF324982.1|BF324982
EST:     A-TGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|10254604|gb|BE822370.1|BE822370
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|7692748|gb|AW760848.1|AW760848
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|21600493|gb|BQ610824.1|BQ610824
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|254348332|gb|GR852011.1|GR852011
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|58015407|gb|CX702149.1|CX702149
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|193405196|gb|FK372573.1|FK372573
EST:     -TTGACTCCGAAACTGGAGCAGTTATCATGGAACCTA-TCATCTAAATGT                         GTATGAGCAACTGAATAGACCATACCAAGGCCCTTAACGGACGCACTTACA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGA-TAGACCATACCAAGGCCCTTAACGGACGCACTTACA
EST: gi|5761286|gb|AI966649.1|AI966649
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|12773923|gb|BG238850.1|BG238850
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|193575523|gb|FK528016.1|FK528016
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
EST: gi|193455465|gb|FK419764.1|FK419764
EST:     ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGT                         GTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA
genomic: ATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaac ... atatctgcagGTATGAGCAACTGATAGACCATACCAAGGCCCTTAACGGACGCACTTACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGAGAGATGGATTGTTAATCTCATCCGGAGCTCAAAGCTTGATGCCAAAATTGACTCCGAAACTGGAGCAGTTATCATGGAACCTAATCATCTAAATGTgtaagttaacattgattattgactcaatagataagggcgtttatagcttcctactgtattgtaccattctgactcactatgtagaccacattcttctgtttatgttgtgtgtcatcattttcatgaccattaatcttatactatatctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA