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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTCAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgtcacttgtaaatttgtaatttttccttctagctttgtaacttcttcggtgttactgatgcttctaaattattgttgtgtag

Basic information

species Glycine max
transcript GLYMA16G17150.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G17150.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv02s0087g00400.t01 (Vitis vinifera), 5'ss of exon 9
GGCTCAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgtcacttgtaaatttgtaatttttccttctagctttgtaacttcttcggtgtta--ctgatgcttctaaattattgttgtgtag
|| |||||||||||| ||||| |||||||||||||||   | || || |   | || ||| || |  ||| |    | |     ||| ||     |||        |  | |  ||  || || ||| |  |  ||     || ||
GGATCAGCAAAGAATCTGCCCCCATCCTGCACTTCAAGTCTAAGACCGGGCTTGgtgagtgtggccattgaagtggtttttgcattctttgccattttcgggtcaatgtgctaatagcctaatacttattgacaatc----tgcag
















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|6070525|gb|AW099912.1|AW099912
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTGTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGGT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|5753570|gb|AI960857.1|AI960857
EST:     CTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|7590021|gb|AW705783.1|AW705783
EST:     CAGCAGAGAATTTGCCCTCATCCTGCACTTCAAAATTCAACCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTTCAATCTTCATT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6666292|gb|AW277751.1|AW277751
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6668069|gb|AW279520.1|AW279520
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|7589651|gb|AW705421.1|AW705421
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6667401|gb|AW278852.1|AW278852
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6724652|gb|AW309107.1|AW309107
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6667540|gb|AW278991.1|AW278991
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|151394400|gb|EV264271.1|EV264271
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6455706|gb|AW186389.1|AW186389
EST:     TTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: TTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6455546|gb|AW186229.1|AW186229
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6455060|gb|AW185743.1|AW185743
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6668142|gb|AW279593.1|AW279593
EST:     CAGCAGAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCGCACAATATGTGGCATCACATATCAGTACTCCAATCTAT-GA
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCT-TCG-
EST: gi|10255077|gb|BE822843.1|BE822843
EST:     CAGCAAAGAATTTGCNNNCATNNNGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCNNAATATGTGGCATCACATATCAGTACTCCAANCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|7589195|gb|AW704974.1|AW704974
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|298163578|gb|HO012311.1|HO012311
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|5753462|gb|AI960749.1|AI960749
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
EST: gi|6341492|gb|AW164316.1|AW164316
EST:     CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTA                         TGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT
genomic: CAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgt ... tgttgtgtagTGCTTTTTCCCACAATATGTGGCATCACATATCAGTACTCCAATCTTCGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTCAGCAAAGAATTTGCCCTCATCCTGCACTTCAAAATTCAGCCCAGAACTAgtaagtttgtcacttgtaaatttgtaatttttccttctagctttgtaacttcttcggtgttactgatgcttctaaattattgttgtgtag

- - - GCAAAG
- - - - AAAGAA