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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTACTGAAGAAGGATAACACTTTTGTGTACATGTGTGGACTAAAAGGAATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacattttccttttttcttcacacttgaggggaaacctttttgtcttggtacatcatttggagagtaacttcactaactatatcttgtgtttcattgtgtactatag

Basic information

species Glycine max
transcript GLYMA16G23710.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23710.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os06g01850.1 (Oryza sativa), 5'ss of exon 7
GAATTACTGAAGAAGGATAACACTTTTGTGTACATGTGTGGACTAAAAGGAATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacattttccttttttcttcacacttg-aggggaaacctttttgtcttggtacatcatttggagagtaacttcactaactatatcttgtgtttcattgtgtactatag
||  | |||||||||||  |||| | |||||||||||||||||| ||||| ||||| ||||||||||||||||||||||||||||||||||| ||||||||||  | ||  | ||      | |    ||| | ||  ||  |     |||  |||  || |||| |   ||| ||    |    |||| | ||||                
GAGCTCCTGAAGAAGGACCACACCTATGTGTACATGTGTGGACTGAAAGGCATGGAGAAGGGTATTGATGACATTATGGTGTCATTGGCTGCAAAAGATGgtat-atatgcttctgaaccttacctttttgcatggataatttaagaatctgagtaattcttttgcatgctaaattttgca-tggtatcgt-tgttag--------------

upper sequence: GLYMA16G23710.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G168143_T01 (Zea mays), 5'ss of exon 7
GAATTACTGAAGAAGGATAACACTTTTGTGTACATGTGTGGACTAAAAGGAATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacattttccttttttcttcacacttgaggggaaacctttttgtcttggtacatcatttggagagtaacttcactaactatatcttgtgtttcattgtgtactatag
||  | ||||||||||| ||||| |  || |||||||||||  | ||||| ||||| |||||||| |||||||||||||||||| ||||||  ||||| |||| |    |   ||||     | |  ||| ||    |||   |    |||| |   |      |||| |   |    |   |||||    || || | |||         
GAGCTCCTGAAGAAGGACAACACCTACGTCTACATGTGTGGGTTGAAAGGCATGGAGAAGGGTATCGATGACATTATGGTGTCACTGGCTGAAAAAGACGgtatgcagataatctttcaatctgaacctttagttccaactgct----cttgatg-gtggcgctgagact--ttgtgttgcatatattgcttgcttaaatgtcag------

upper sequence: GLYMA16G23710.1 (Glycine max), 5'ss of exon 8
lower sequence: AT5G66190.2 (Arabidopsis thaliana), 5'ss of exon 8
GAATTACTGAAGAAGGATAACACTTTTGTGTACATGTGTGGACTAAAAGGAATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacattttccttttttcttcacacttgaggggaaacctttttgtcttggtacatcatttggagagtaacttcactaactatatcttgtgtttcattgtgtactatag
|| || |||||||| || ||||| ||||| ||||||||||| || || || ||||| |||||||| |||||||||||||| ||  | ||||| ||||||||||||  |  ||  |||  |  |||                 |||  | ||   |  || | ||     |   || | |||   | | |||| ||    || | ||     
GAGTTGCTGAAGAAAGACAACACCTTTGTTTACATGTGTGGTCTTAAGGGTATGGAGAAGGGTATCGATGACATTATGGTCTCGCTTGCTGCTAAAGATGgtaagg-acattgatttcattatca-----------------tttgattttcagaagtc-tgtgccagatgtatttattaaac-tgttttgt-ttggggtgggaacag---

upper sequence: GLYMA16G23710.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv18s0001g14450.t01 (Vitis vinifera), 5'ss of exon 8
GAATTACTGAAGAAGGATAACACTTTTGTGTACATGTGTGGACTAAAAGGAATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacattttccttttttcttcacacttgaggggaaacctttttgtcttggtacatcatttggagagtaacttcactaactatatcttgtgtttcattgtgtactatag
|| ||||| || |||||||| || | |||||| |||||||| || || |||||||| ||||| ||||||||||| |||||||| |||||||| | |||||||||             | | | ||  |   ||  ||  |   ||| |||   || || | |     | | | ||  | |    | |||| |  ||| | || | |     
GAGTTACTTAAAAAGGATAATACCTATGTGTATATGTGTGGGCTGAAGGGAATGGAGAAGGGAATTGATGACATAATGGTGTCTTTGGCTGCTAGAGATGgtaaa------------tatatccatgcaaaagttgattctgatttttctgaataaattact-----aatcattttgcaactgctctcttcttcttcctggttttcag---

upper sequence: GLYMA16G23710.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv04s0023g03510.t01 (Vitis vinifera), 5'ss of exon 8
GAATTACTGAAGAAGGATAACACTTTTGTGTACATGTGTGGACTAAAAGGAATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacattttccttttttcttcacacttgaggggaaacctttttgtcttggtacatcatttggagagtaacttcactaactatatcttgtgtttcattgtgtactatag
|||||||||||||| || ||||| | ||| || |||||||| || || || ||||| ||||| ||||||||||| ||||||||| ||||||| | ||||||||||| | |   ||   ||    | | ||||         | |   | | | |  || ||   ||    ||| | |     | | || ||  |||||             
GAATTACTGAAGAAAGACAACACCTATGTCTATATGTGTGGGCTCAAGGGCATGGAGAAGGGAATTGATGACATAATGGTGTCACTGGCTGCTAGAGATGgtaagaaaataaactcgattg---agatttga--------ttctgaatttggatgtataat---gactccaacctta-----tgtttcctggttttcag------------

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|213606827|gb|DB974332.1|DB974332
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|8825895|gb|BE209625.1|BE209625
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|193546408|gb|FK501801.1|FK501801
EST:     AATGG-AAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|31307645|gb|CD392848.1|CD392848
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCCATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|120494376|gb|EH222543.1|EH222543
EST:     ACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: ACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|120532239|gb|EH260372.1|EH260372
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|8825902|gb|BE209632.1|BE209632
EST:     ATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTTGCCAA-GATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: ATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCT-GCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|20812596|gb|BQ297074.1|BQ297074
EST:     AATGGAAAAGGGTATTGATGACATAATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCTATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|209707439|gb|BW670952.1|BW670952
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|9899723|gb|BE608691.1|BE608691
EST:     GCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: GCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|193552571|gb|FK510364.1|FK510364
EST:     GGAAAAGGGTATTGATGTACTATTTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: GGAAAAGGGTATTGATG-AC-A-TTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|120495142|gb|EH223309.1|EH223309
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|17518600|gb|BM187642.1|BM187642
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|13479451|gb|BG508794.1|BG508794
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|213593048|gb|DB983392.1|DB983392
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|192296690|gb|FG991258.1|FG991258
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAG-CAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|209718137|gb|BW657796.1|BW657796
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|193642599|gb|FK594081.1|FK594081
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|15287226|gb|BI471117.1|BI471117
EST:     AATGGAAAAGGGTATTGATGACATAATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|154204813|gb|EV555075.1|EV555075
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
EST: gi|13479117|gb|BG508460.1|BG508460
EST:     AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATG                         GCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA
genomic: AATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacatt ... tgtactatagGCATTGATTGGACTGAGTACAAGAGGCAATTGAAGAAATCAGAGCAATGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATTACTGAAGAAGGATAACACTTTTGTGTACATGTGTGGACTAAAAGGAATGGAAAAGGGTATTGATGACATTATGGTGTCATTGGCTGCCAAAGATGgtaagacattttccttttttcttcacacttgaggggaaacctttttgtcttggtacatcatttggagagtaacttcactaactatatcttgtgtttcattgtgtactatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG