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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaaattgaatttttgctacttttgaactttttcatgtgattaccactgtttctgggtatcaaactgtaattcaatatttgatatggttatgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGGAACTGTAAATATTAAGACAAAGGATATAATCTAGATTGATATAAATTAA

Basic information

species Glycine max
transcript GLYMA16G25450.4
intron # 8
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|207777564|gb|GD746643.1|GD746643
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         AATTGTAATTCAAG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagA-TTGTAATTCAAG
EST: gi|208062592|gb|GD860697.1|GD860697
EST:     TTGAAAACATATATCCCGTGCTTACTGAGTTCAAGGAAAAACCAACAATG                         ATTGTAATTCAA
genomic: TTGAAAACATATATCCCGTGCTTACTGAGTTCA-GGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAA
EST: gi|208281131|gb|GE079733.1|GE079733
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
EST: gi|193614819|gb|FK562829.1|FK562829
EST:     TGAAAACATATATCCCGTGCTTACTGAGTTCAAGGAAAAAACCAACAATG                         ATTGTAATTCAA
genomic: TGAAAACATATATCCCGTGCTTACTGAGTTCA-GGAAAAA-CCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAA
EST: gi|193570275|gb|FK526228.1|FK526228
EST:     TTGAAAACATATATCCCGTGCTTACTGAGTTCAAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCA
genomic: TTGAAAACATATATCCCGTGCTTACTGAGTTCA-GGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCA
EST: gi|193394019|gb|FK358556.1|FK358556
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGG
EST: gi|193656727|gb|FK603759.1|FK603759
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCG
EST: gi|208332947|gb|GE130360.1|GE130360
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCG
EST: gi|208249868|gb|GE048711.1|GE048711
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAG
EST: gi|254320724|gb|GR827173.1|GR827173
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
EST: gi|207684739|gb|GD666714.1|GD666714
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGT
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGT
EST: gi|193717026|gb|FK649894.1|FK649894
EST:     TTTG-AAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
EST: gi|193650388|gb|FK598115.1|FK598115
EST:     TTTGAAAACATATATCCCGTGCTTACCGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGT
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGT
EST: gi|193705794|gb|FK643604.1|FK643604
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTTAATTCAAGAAAGAGCAGGAGCAGTTGGTTTGGCAG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGT-AATTCAAGAAAGAGCAGGAGCAGT-GGTTTGGCAG
EST: gi|207782140|gb|GD753711.1|GD753711
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAG
EST: gi|207788728|gb|GD761644.1|GD761644
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAG
EST: gi|193494312|gb|FK462752.1|FK462752
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGC
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGC
EST: gi|193598761|gb|FK554129.1|FK554129
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
EST: gi|208332302|gb|GE126523.1|GE126523
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAA
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAA
EST: gi|208122006|gb|GD917643.1|GD917643
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCA-CAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGG
EST: gi|208074510|gb|GD868231.1|GD868231
EST:     TTTGAAAACNTATATCCCGTGCTTACTGAGTTCAGGAAAAACCA-CAATG                         ATTGTAATTCAAGAAAG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAG
EST: gi|193449544|gb|FK416467.1|FK416467
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
EST: gi|193570425|gb|FK525370.1|FK525370
EST:     TGAAAACATATATCCCGTGCTTACTGAGTTCAAGGAAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAG
genomic: TGAAAACATATATCCCGTGCTTACTGAGTTCA-GGAAAAA-CCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAG
EST: gi|193706474|gb|FK646714.1|FK646714
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAAGAAAGAGCA
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAA-GAAAGAGCA
EST: gi|208111655|gb|GD911921.1|GD911921
EST:     TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAA
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAA
EST: gi|193497917|gb|FK458713.1|FK458713
EST:     TTTGAAAACATATATCCCGTGCTTACCGAGTTCAGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
genomic: TTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
EST: gi|208031541|gb|GD830377.1|GD830377
EST:     AGGAAAAACCAACAATG                         ATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG
genomic: AGGAAAAACCAACAATGgtatgaagtt ... atgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgtttctgggtatcaaactgtaattcaatatttgatatggttatgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGGAACTGTAAATATTAAGACAAAGGATATAATCTAGATTGATATAAATTAA
                                atttgat  putative branch site (score: 5)
                       taattcaatatttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataaaattgaatttttgctacttttgaactttttcatgtgattaccactgtttctgggtatcaaactgtaattcaatatttgatatggttatgatggcagATTGTAATTCAAGAAAGAGCAGGAGCAGTGGTTTGGCAGAGAAGTTCGTGGAACTGTAAATATTAAGACAAAGGATATAATCTAGATTGATATAAATTAA

- - - - - - - -tgctact
- - - - - - - - - - - - - - - - -tcatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatatg