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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGCAATAATGGCTGTTGGAGCATCCGAGCCCACTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtccaaacatttgtgtatctaggagtatgacttatttattgttagaaaaatgtaaatccagttccagacttctgtttattatagttgaagaaatgcaaatttgcag

Basic information

species Glycine max
transcript GLYMA20G31630.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31630.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv18s0072g01000.t01 (Vitis vinifera), 5'ss of exon 5
GGAGCAATAATGGCTGTTGGAGCATCCGAGCCCACTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtccaaacatttgtgtatctaggagtatgacttatttattgttagaaaaatgtaaatccagttccagacttctgtttattatagttgaagaaatgcaa-atttgcag
|||||||| ||||| ||||||||||| || || || ||||| || || ||||||||||| ||||||||||||| ||| |||||||| |   |||  | || | | |  | |     |  | || |  |           ||||   |   | |  |   | | |||| |||  | ||   | |||||| || |||||
GGAGCAATCATGGCGGTTGGAGCATCAGAACCAACCGTTGTTGCCACCAAGGATGGTCGGATTGGCATGAAGAGCCAGATGCAGgtaattttccttagatctctctccccaaattgagaatttctacacc---------atgtg--tttggatttattttacagtttcttac-gctgggaacatgcaatatctgcag
















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|207747995|gb|GD720868.1|GD720868
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|207842036|gb|GD813696.1|GD813696
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|208164905|gb|GD962879.1|GD962879
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTG
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTG
EST: gi|192313139|gb|FK003721.1|FK003721
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|193619229|gb|FK569431.1|FK569431
EST:     CAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAACCTATGGTGCTGATTTGGCTTCA
genomic: CAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|193567349|gb|FK523392.1|FK523392
EST:     CATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTGTGGTGCTGATTTGGCTTCA
genomic: CATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|18039518|gb|BM307812.1|BM307812
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|207786366|gb|GD757065.1|GD757065
EST:     CATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|208310067|gb|GE109795.1|GE109795
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|208070795|gb|GD869260.1|GD869260
EST:     TGGCTACAAAGGATGGTTCGCATTGGCATGTAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: TGGCTACAAAGGATGG-TCGCATTGGCATG-AAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|208143451|gb|GD942469.1|GD942469
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|298180893|gb|HO022332.1|HO022332
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGGAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|192313138|gb|FK003720.1|FK003720
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|193489343|gb|FK455346.1|FK455346
EST:     GTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: GTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|193555157|gb|FK515154.1|FK515154
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTAGCTGATTTGG
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGT-GCTGATTTGG
EST: gi|208274109|gb|GE073285.1|GE073285
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGT
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGT
EST: gi|22929725|gb|BU546864.1|BU546864
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|7591481|gb|AW707213.1|AW707213
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGAATGAAGAACCAAATGCAG                         GTCAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|193545458|gb|FK503531.1|FK503531
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTGATCTATGG
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGG
EST: gi|207721332|gb|GD702389.1|GD702389
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCCATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|193664881|gb|FK611625.1|FK611625
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTAGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
EST: gi|9204994|gb|BE331218.1|BE331218
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTC-
EST: gi|207753601|gb|GD725999.1|GD725999
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCG
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCG
EST: gi|207823490|gb|GD794109.1|GD794109
EST:     CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAG                         GTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA
genomic: CTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtcc ... aaatttgcagGTTAATGTTACCGCTGATCATCGAGTAATCTATGGTGCTGATTTGGCTTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGCAATAATGGCTGTTGGAGCATCCGAGCCCACTGTTGTGGCTACAAAGGATGGTCGCATTGGCATGAAGAACCAAATGCAGgtgagagtccaaacatttgtgtatctaggagtatgacttatttattgttagaaaaatgtaaatccagttccagacttctgtttattatagttgaagaaatgcaaatttgcag

- - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC