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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCAGGCCAAGACCTTGAAGGTTGCCTGCAATCTGAACAATGCTGCTTGCAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactgtcttccatcctttggaggtcaacaaccttgttcacaaaaaataactactttttatgtggatcgatagg

Basic information

species Glycine max
transcript GLYMA18G32830.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G32830.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv00s0958g00020.t01 (Vitis vinifera), 5'ss of exon 6
-AAGCAGGCCAAGACCTTGAAGGTTGCCTGCAATCTGAACAATGCTGCTTGCAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactgtcttccatcctttggaggtcaacaaccttgttcacaaaaaata-actactttttatgtggatcgatagg---------------
 ||||||||||| ||  | |||||| | ||||| || || ||||| ||||||||| |||| || ||||||||||| || || |||||  |||| |||||||||         || ||||      || |  |||| | ||   |  ||||   |   | |   |  | ||  |    |||               
GAAGCAGGCCAAAACTCTCAAGGTTACTTGCAACCTCAATAATGCGGCTTGCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtag--------ctcccataagcatgatgagaacacctttaaacttaaaattcatgttgcacctcttttgactttgaagggatctccacatatag
















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|298167977|gb|HO013240.1|HO013240
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|207820812|gb|GD789695.1|GD789695
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193412717|gb|FK376940.1|FK376940
EST:     AATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGGCCCTCCTATAGAAGGGCCCA
genomic: AATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAA-GCCCT-CTATAGAAGGGCCCA
EST: gi|208261294|gb|GE058202.1|GE058202
EST:     CGAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGACCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193603878|gb|FK557639.1|FK557639
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193695544|gb|FK631314.1|FK631314
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193401606|gb|FK366279.1|FK366279
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193408318|gb|FK371888.1|FK371888
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGG
EST: gi|193410122|gb|FK370831.1|FK370831
EST:     AATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: AATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|151413161|gb|EV282969.1|EV282969
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193710398|gb|FK648654.1|FK648654
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGA-GGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193701912|gb|FK640478.1|FK640478
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|11412552|gb|BF424563.1|BF424563
EST:     TTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: TTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|207842778|gb|GD816002.1|GD816002
EST:     CAAGTTG-AGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|208306374|gb|GE106651.1|GE106651
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCC
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCC
EST: gi|208034492|gb|GD837188.1|GD837188
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|192316447|gb|FK008180.1|FK008180
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAG-                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGG-CCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193305405|gb|FK273254.1|FK273254
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|208249138|gb|GE050375.1|GE050375
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|208119047|gb|GD914740.1|GD914740
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193603805|gb|FK557608.1|FK557608
EST:     TGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: TGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|207798742|gb|GD769155.1|GD769155
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193704914|gb|FK645720.1|FK645720
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|208248587|gb|GE044070.1|GE044070
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|208167101|gb|GD963003.1|GD963003
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|207713854|gb|GD696313.1|GD696313
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|192316448|gb|FK008181.1|FK008181
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAAT-GTGTACTAAG-                         TGTTGGACCTTGAGAGTA
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTA
EST: gi|208127381|gb|GD925351.1|GD925351
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGGCCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193658208|gb|FK605847.1|FK605847
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|31475387|gb|CD417415.1|CD417415
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|193583060|gb|FK539688.1|FK539688
EST:     ACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: ACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
EST: gi|9440155|gb|BE440665.1|BE440665
EST:     CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGG                         TGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG
genomic: CAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactg ... gatcgataggTGTTGGACCTTGAGAGTACAAATGTGAAAGCCCTCTATAGAAGGGCCCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGCAGGCCAAGACCTTGAAGGTTGCCTGCAATCTGAACAATGCTGCTTGCAAGTTGAAGTTAAAAGACTACAAAGAAGCAGAGAAATTGTGTACTAAGGtattatactgtcttccatcctttggaggtcaacaaccttgttcacaaaaaataactactttttatgtggatcgatagg

- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC