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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtatagaatttctcttcctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatatttta...

Basic information

species Glycine max
transcript GLYMA10G27570.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G27570.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os10g32970.1 (Oryza sativa), 5'ss of exon 1
GGACGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtata-------gaatttctctt--cctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatatttta
   |||| |||| ||||| ||| ||||| |||||||  ||||| || ||||| ||||| || ||||||| |||||||||||||||||| || ||||||||| ||||         |||   | ||   ||    ||   | | | ||||     |    | |  |  |      |  | |    || |  |||   | || ||||    
---CGTTCTGGTACGACATCCAGTCCAAGCCCAAGCCCGGCGCCGCGTGGGGGACCTCGCTCCGCAAGGCCTACACCTTCGACACCGTCGAGGAGTTCTGGGGgtacgtgccgatgaagcgccctaagcccttgcccgatccgtttcccggtcttcggatctgatctactttctgtgttttg--atcctgtctggtagctcatat----

upper sequence: GLYMA10G27570.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G022019_T01 (Zea mays), 5'ss of exon 1
GGACGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggta---tagaatttc--------tcttcctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatatttta
   | || |||| ||||| |||  | ||  |||||   || ||||| ||||| ||||| ||    |||| ||||||||||||||||||||| ||||||||| ||||   | |   | |         |||| |   ||  || | | |||  |  | ||   || | |  ||    | ||       ||   |||    |  |        
---CCTTCTGGTACGACATCCAGACGAAGACCAAGTCCGGGGCTGCGTGGGGCACCTCCCTCAAAAAGGCCTACACCTTCGACACCGTTGAGGAGTTCTGGAGgtacgttggcgatgcgccggataccttcatggcccggttccctttcctgatcactcccgttctgatctggtctggatgccgtggtggtttct-gggtagtg-------

upper sequence: GLYMA10G27570.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv05s0049g01770.t01 (Vitis vinifera), 5'ss of exon 1
GGACGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtatagaatttctcttcctcctcctttttcttc--tcccaaatattcattttt--ttagatgaagggaatctaagcatgcaa-tctcaaatcttatatttta
   | || |||| ||| ||||| ||||| |||||||||||||| |||||||| ||||||||||||||||  ||||||||||| ||||| ||||| || |||||||||     |           || ||  ||||   |  | ||| ||   || |  || | |||  ||||   | ||| | || |     | |||  ||||  
---CCTTCTGGTTCGATAACCAGTCCAAGCCCAAGCAAGGCGCGGCTTGGGGGACCTCTCTTCGCAAGGCTTACACCTTCGAAACCGTCGAAGAATTTTGGTGgtatctctctcgctcgttatttctttaatctttggtttcgaattttttcttctgtttggttgatcggaaaacacgcaggaaagtagtggaactttaattt--

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|192302214|gb|FG995838.1|FG995838
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298169150|gb|HO020510.1|HO020510
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|193385145|gb|FK351543.1|FK351543
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|193385145|gb|FK351543.1|FK351543
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298167529|gb|HO012792.1|HO012792
EST:     GGAACCTCCCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|192302215|gb|FG995839.1|FG995839
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298173651|gb|HO016987.1|HO016987
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298179882|gb|HO025097.1|HO025097
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298176128|gb|HO015533.1|HO015533
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|24136483|gb|BU926993.1|BU926993
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|192304887|gb|FG997069.1|FG997069
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|213609048|gb|DB962918.1|DB962918
EST:     GAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTAG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATT
genomic: GAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCT-Ggtggtataga ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATT
EST: gi|298167914|gb|HO013177.1|HO013177
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298164873|gb|HO010870.1|HO010870
EST:     GGAACCCCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298164697|gb|HO014342.1|HO014342
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298164697|gb|HO014342.1|HO014342
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|209716295|gb|BW657598.1|BW657598
EST:     GAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTAG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATT
genomic: GAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCT-Ggtggtataga ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATT
EST: gi|298165203|gb|HO011252.1|HO011252
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298174019|gb|HO017355.1|HO017355
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|151400105|gb|EV269919.1|EV269919
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298177859|gb|HO027412.1|HO027412
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|7146158|gb|AW508143.1|AW508143
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|7146158|gb|AW508143.1|AW508143
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298175984|gb|HO015389.1|HO015389
EST:     GGAACCTCTCTTCACAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298175984|gb|HO015389.1|HO015389
EST:     GGAACCTCTCTTCACAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298194327|gb|HO040975.1|HO040975
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298184604|gb|HO029817.1|HO029817
EST:     GGAACCTCTCTTTGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298184604|gb|HO029817.1|HO029817
EST:     GGAACCTCTCTTTGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|192323520|gb|FK017101.1|FK017101
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298195261|gb|HO043789.1|HO043789
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|151395269|gb|EV265140.1|EV265140
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|151395269|gb|EV265140.1|EV265140
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298173473|gb|HO016809.1|HO016809
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|10238974|gb|BE807862.1|BE807862
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|192295702|gb|FG990556.1|FG990556
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298195765|gb|HO044156.1|HO044156
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298195765|gb|HO044156.1|HO044156
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298176942|gb|HO026949.1|HO026949
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|254339729|gb|GR857854.1|GR857854
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298186722|gb|HO037355.1|HO037355
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|298186722|gb|HO037355.1|HO037355
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|209710300|gb|BW676362.1|BW676362
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|5127027|gb|AI748763.1|AI748763
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|207823844|gb|GD794519.1|GD794519
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|207823844|gb|GD794519.1|GD794519
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTG                         G
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtataga ... gctggtttag-
EST: gi|192304888|gb|FG997070.1|FG997070
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|151409238|gb|EV279046.1|EV279046
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|192329522|gb|FK022214.1|FK022214
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt
EST: gi|298174417|gb|HO014562.1|HO014562
EST:     GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                       
genomic: GGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TGgtggtataga ... gctggttt

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGgtggtatagaatttctcttcctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatatttta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctccc