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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agggcatccaattaataatttctcgtatatctgaattgtgaatagtattcaacacccaaataatatcttaatcattctgcaatgaaaacttcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATTAGGCGGCAGATGGGTCTCAGCTTCCCGCATTCTGCCGGTTCATAGATGC

Basic information

species Glycine max
transcript GLYMA06G42840.1
intron # 11
splice site 3'
intron type U2

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|120531620|gb|EH259753.1|EH259753
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193306967|gb|FK271031.1|FK271031
EST:     TGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: TGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193366898|gb|FK329064.1|FK329064
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCAATCACCTGAACTG
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCA-TCACCTGAACTG
EST: gi|13252791|gb|BG363694.1|BG363694
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|208270160|gb|GE069040.1|GE069040
EST:     TTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: TTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|6725990|gb|AW310389.1|AW310389
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|6566201|gb|AW233882.1|AW233882
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193335279|gb|FK297991.1|FK297991
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193335864|gb|FK299794.1|FK299794
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193351395|gb|FK314619.1|FK314619
EST:     GTCTTCCTAATGGCCATCCACTG-CCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193428217|gb|FK397183.1|FK397183
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|8401865|gb|BE057499.1|BE057499
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|208333494|gb|GE131061.1|GE131061
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|13240209|gb|BG359518.1|BG359518
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|208332095|gb|GE126484.1|GE126484
EST:     TCTTCCTAATGGCCATCCACTGTCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: TCTTCCTAATGGCCATCCACTG-CCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|9820609|gb|BE556119.1|BE556119
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|207793140|gb|GD766026.1|GD766026
EST:     GTCTTCCTAATGGCCATCCACTG-CCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGGGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193317277|gb|FK281537.1|FK281537
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAA-CAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|31468555|gb|CD410583.1|CD410583
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193364520|gb|FK333561.1|FK333561
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCAATACACCTGAACTG
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCA-T-CACCTGAACTG
EST: gi|208245498|gb|GE046988.1|GE046988
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGGGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|207836884|gb|GD807973.1|GD807973
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGGGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|13562800|gb|BG551020.1|BG551020
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|9258830|gb|BE346977.1|BE346977
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|207836275|gb|GD806944.1|GD806944
EST:     GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GTCTTCCTAATGGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... tcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcaacacccaaataatatcttaatcattctgcaatgaaaacttcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATTAGGCGGCAGATGGGTCTCAGCTTCCCGCATTCTGCCGGTTCATAGATGC
                    tcttaat  putative branch site (score: 3)
            aaataatatcttaatc  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agggcatccaattaataatttctcgtatatctgaattgtgaatagtattcaacacccaaataatatcttaatcattctgcaatgaaaacttcgactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATTAGGCGGCAGATGGGTCTCAGCTTCCCGCATTCTGCCGGTTCATAGATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- -gcatcca
- - - - - - - - - - - - - - - - - - - - - - - - -caacacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgaa