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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttaattgtgatatgattttttcacatcagattgaaattatcaatgtctccagctctccatttgtttatagtcatatttcatatacactgttttatgcattttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCTGGAAATTTCTGATTGAGGAGGTTTTTCCACACATAGCCTCCTTAATATG

Basic information

species Glycine max
transcript GLYMA12G09170.1
intron # 2
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|151402190|gb|EV272003.1|EV272003
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGGGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|192314909|gb|FK010727.1|FK010727
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|254342814|gb|GR858976.1|GR858976
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|209708597|gb|BW678774.1|BW678774
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|209708598|gb|BW678775.1|BW678775
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|209727457|gb|BW651952.1|BW651952
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|192314910|gb|FK010728.1|FK010728
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|209727456|gb|BW651951.1|BW651951
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|193628358|gb|FK576804.1|FK576804
EST:     GGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: GGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|151399013|gb|EV268884.1|EV268884
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAGAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|151395494|gb|EV265371.1|EV265371
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|19053340|gb|BM732007.1|BM732007
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|21638601|gb|BM139633.1|BM139633
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAGTATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|10843020|gb|BF067140.1|BF067140
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|151404319|gb|EV274129.1|EV274129
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCACATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|41146434|gb|CK606645.1|CK606645
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|21601174|gb|BQ611505.1|BQ611505
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
EST: gi|298168608|gb|HO009538.1|HO009538
EST:     CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATT                         GGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT
genomic: CATCTGTGGCCATACCACTGGCTTTGGCTGCAACATCAATTTACATGATTgtaagtttaa ... ttttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctccatttgtttatagtcatatttcatatacactgttttatgcattttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCTGGAAATTTCTGATTGAGGAGGTTTTTCCACACATAGCCTCCTTAATATG
                                             ttttgtcc  CT-rich tract
          tttatagtcatatttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttaattgtgatatgattttttcacatcagattgaaattatcaatgtctccagctctccatttgtttatagtcatatttcatatacactgttttatgcattttgtccagGGACGAGGGATCTATAATATGTCGCATGGAATTGGAAAGAAAGAATGACCTGGAAATTTCTGATTGAGGAGGTTTTTCCACACATAGCCTCCTTAATATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG