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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAAGTTTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggtttttgtcacccatttctatcttatgtgctcctttttttttgggtacatatgggtcatcacatgcatgcttgcagctttatatgcaatattgcaa...

Basic information

species Glycine max
transcript GLYMA10G32590.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32590.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g40890.1 (Oryza sativa), 5'ss of exon 3
ATAAGTTTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtagg--tttttgtcacccatttctatcttatgtgctcctttttttttgggtacatatgggtcatcacatgcatgcttgcagctttatatgcaatat-tgcaa
|||| ||||||||||||||||| ||||| ||   ||||||||||||||| ||  ||||| |  |  || |    |||  |  | |||  |  | | || | |||   | |  ||   |||| |  |  ||   |   | | | ||||  |||  |||| 
ATAAATTTGGAGCTGCTATGGCACTTGTGAAGAGTGACATTGGTGGTAATATCACGgtaagcatcctttttctgcatgacactgtta-ataatacattgtgtttcattcctcattt-tcatta-gtaaatttctagtgttatctatgtgatagatgcat

upper sequence: GLYMA10G32590.2 (Glycine max), 5'ss of exon 3
lower sequence: AT2G33470.2 (Arabidopsis thaliana), 5'ss of exon 3
ATAAGTTTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtag-----gtttttgtcacccattt--ctatcttatgtgctcctttttttttgggtacatatgggtcatcacatgcatgcttgcagctttatatgcaatattgcaa
|||| ||||||||||||||| | || || ||||||||||||||||| |||||| |||||      |  ||     ||| |||    |||  ||        | | ||||   | || |      |  ||   ||    ||||   || | |||    ||    
ATAAATTTGGAGCTGCTATGACTCTCGTGAAATCTGACATTGGTGGCAACATAACGgtaaaaaatgcattgtctgcccctttgataatcgaatagcacaaatctattttacattcacagtacaaactactgacaaaaatgca---ttgtctgccccttt----

upper sequence: GLYMA10G32590.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0049g01330.t01 (Vitis vinifera), 5'ss of exon 3
ATAAGTTTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggtttttgtcacccatttctatcttatgtgctcctttttttttg-ggta--catatgggtcatcacatgcatgcttgcagctttatatgcaatattgcaa
|||||||||||||||||||||| ||||| |||||||| ||||||||||| || |||||| | | |  |  | ||| | | |    |||        || |||| ||||  | | |  |   |   |      | |||   ||  |  ||   |||    
ATAAGTTTGGAGCTGCTATGGCACTTGTAAAATCTGATATTGGTGGTAATATCTCGgtaagatatcttttctcatgtatcttccgtgtataatcacttgtttgaggtaatccttttagctttggtagaataacatgccttttagttggctccattt---

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|151408958|gb|EV278766.1|EV278766
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|151409417|gb|EV279225.1|EV279225
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|209707561|gb|BW680931.1|BW680931
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|298197177|gb|HO041920.1|HO041920
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|192324104|gb|FK019395.1|FK019395
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|192295514|gb|FG988088.1|FG988088
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCGGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|151411234|gb|EV281045.1|EV281045
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|213615020|gb|DB957058.1|DB957058
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|193346658|gb|FK312124.1|FK312124
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|254340633|gb|GR854361.1|GR854361
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|151412396|gb|EV282208.1|EV282208
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|254340634|gb|GR854362.1|GR854362
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|298173249|gb|HO020233.1|HO020233
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|151406737|gb|EV276552.1|EV276552
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
EST: gi|192326692|gb|FK018879.1|FK018879
EST:     TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCG                         AGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC
genomic: TTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggttttt ... ttcaaagcagAGATTGGAATCTAAGTACTCCTCCAATCCAACCAAATTCAACTACCTGTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAAGTTTGGAGCTGCTATGGCCCTTGTTAAATCTGACATTGGTGGTAACATATCGgtaggtttttgtcacccatttctatcttatgtgctcctttttttttgggtacatatgggtcatcacatgcatgcttgcagctttatatgcaatattgcaa

- - - TTGGAG
- - - - GGAGCT
- - - - - AGCTGC
- - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - TGGTGG