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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctgacattgtaattccatatatagttttaaaagaataatggatataatattctagagacccatgtactcatttgcggtaccttcatattttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCCAACCATGGGGTCAAGTTTTCATCTGTTGAGGTTGATTTGCCAGCCATGA

Basic information

species Glycine max
transcript GLYMA17G04210.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G04210.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0020g00380.t01 (Vitis vinifera), 3'ss of exon 1
tgctgacattgtaattccatatatagttttaaaagaataatggatataatattcta--gagacccatgtactcatttgcggtaccttcatattttggta-cagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCCAACCATGGGGTCAAGTTTTCATCTGTTGAGGTTGATTTGCCAGCCATGA
    ||   |  | |    |   ||   |   | | ||       |      || |   | |   ||   || | |  | | |  ||  | | ||  || ||||| ||||| ||||| ||||||||||| ||||| || || ||| ||||||||| |||||| || |||||  ||||||||||||||||| | || |||||||
caaaga-gctagagtcaagtgagtaacatatgatgcatgtcacgcacttctctcaatcaaaatttattagcttact--ctgaattttgttctcttattatcagGCCCTTCTTCATTCCTCCCACATGTACCATGAAGCCAAGCATTCATTTGCCAGCCATGGTGTGAAGTTCCCATCTGTTGAGGTTGATCTACCTGCCATGA
















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|209717584|gb|BW653973.1|BW653973
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|120530876|gb|EH259009.1|EH259009
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|209718790|gb|BW671991.1|BW671991
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|120530885|gb|EH259018.1|EH259018
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|209727110|gb|BW655202.1|BW655202
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|209719097|gb|BW659386.1|BW659386
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|209721711|gb|BW682552.1|BW682552
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|16281784|gb|BI944667.1|BI944667
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|120530916|gb|EH259049.1|EH259049
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|209711247|gb|BW683610.1|BW683610
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|33390120|gb|CA853327.1|CA853327
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|16276630|gb|BI941960.1|BI941960
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|209698013|gb|BW675631.1|BW675631
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|254337305|gb|GR845088.1|GR845088
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|120530851|gb|EH258984.1|EH258984
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|213603449|gb|DB970490.1|DB970490
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|213616663|gb|DB971216.1|DB971216
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|19453240|gb|BM954650.1|BM954650
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|213596817|gb|DB958053.1|DB958053
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|213605846|gb|DB968612.1|DB968612
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|213617532|gb|DB969244.1|DB969244
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|213589892|gb|DB959461.1|DB959461
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|120530793|gb|EH258926.1|EH258926
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|209726575|gb|BW666493.1|BW666493
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|9986380|gb|BE660488.1|BE660488
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|16276775|gb|BI942037.1|BI942037
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
EST: gi|213605008|gb|DB956355.1|DB956355
EST:     GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAG                         GCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC
genomic: GTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc ... tttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatattctagagacccatgtactcatttgcggtaccttcatattttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCCAACCATGGGGTCAAGTTTTCATCTGTTGAGGTTGATTTGCCAGCCATGA
                                      ttcatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgctgacattgtaattccatatatagttttaaaagaataatggatataatattctagagacccatgtactcatttgcggtaccttcatattttggtacagGCACTTCTGCATTCTTCCCACATGTATCATGAGGCTAAACATGCATTTGCCAACCATGGGGTCAAGTTTTCATCTGTTGAGGTTGATTTGCCAGCCATGA

tgctgac
- - - - - - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - accttca