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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatatatgctaggacaaactgattcaaagtttatcatgtaaggggttacaattgatgccaccttagtactgaagttcctggcatttggtgatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGAAGAACACAAACTGGTCCGTGGTAGAGTGAAGATTGGACTATGATTGCAG

Basic information

species Glycine max
transcript GLYMA04G04170.1
intron # 3
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|193406583|gb|FK375542.1|FK375542
EST:     GAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: GAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|193466718|gb|FK433455.1|FK433455
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|207830846|gb|GD803742.1|GD803742
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGAAACGATGAATTTGCAACGAGAA
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAA
EST: gi|193548975|gb|FK505382.1|FK505382
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|193590013|gb|FK544705.1|FK544705
EST:     TCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: TCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|207750222|gb|GD723390.1|GD723390
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGT
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGT
EST: gi|208039445|gb|GD834113.1|GD834113
EST:     GAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: GAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|193357674|gb|FK319330.1|FK319330
EST:     GAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: GAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|193632668|gb|FK580544.1|FK580544
EST:     TCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: TCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|208241024|gb|GE039574.1|GE039574
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGA
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGA
EST: gi|193409385|gb|FK370407.1|FK370407
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
EST: gi|208156795|gb|GD955075.1|GD955075
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGAAACGATGAATTTGCAACGAGAAGTGAAG
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAG
EST: gi|193680024|gb|FK625260.1|FK625260
EST:     GCAGAAATTATGGAAATTCAGAAAA-TCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAG
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAG
EST: gi|10237462|gb|BE806350.1|BE806350
EST:     GCAGAAATTATGGAAATTCAGAAAAATCAA                         GTTAAGGGAAATGAGTGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAA
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGG-AAATGA-TGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAA
EST: gi|207835788|gb|GD806513.1|GD806513
EST:     GCAGAAATTATGGAAATTCAGAAAAANCAA                         GTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA
genomic: GCAGAAATTATGGAAATTCAGAAAAATCAAgtaagttggg ... gatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttacaattgatgccaccttagtactgaagttcctggcatttggtgatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGAAGAACACAAACTGGTCCGTGGTAGAGTGAAGATTGGACTATGATTGCAG
     aattgat  putative branch site (score: 4)
     aattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taatatatgctaggacaaactgattcaaagtttatcatgtaaggggttacaattgatgccaccttagtactgaagttcctggcatttggtgatgttgcagGTTAAGGAAATGATGAATTTGCAACGAGAAGTGAAGAGAAGACGCCTAAGAAGAACACAAACTGGTCCGTGGTAGAGTGAAGATTGGACTATGATTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- -tatatgc
- - - - - - - - - -ctgattc
- - - - - - - - - - - - - - - - - -catgtaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttcctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatttg