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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCATTAATTTGCTTGAAGAATGCTCCTAACATTCCTGCCAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagtttataaacttaactttttaaaattgttctacaatagggaaaaaaaataacaactatcttctctgcattgtctcaattaaatgcgcag

Basic information

species Glycine max
transcript GLYMA10G34150.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G34150.3 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os08g44810.1 (Oryza sativa), 5'ss of exon 7
TGCATTAATTTGCTTGAAGAATGCTCCTAACATTCCTGCCAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagtttataaacttaactttttaaaattgttctacaatagggaaaaaaaataacaact--atcttctctgcattgtctcaattaaatgcgcag
|||||| |||||||| ||||||||||| ||||| || || ||||| |||||||| || ||  | || ||||| || ||||| || || ||||||    |  ||| |   |    ||| | |  |  || |    |        |||  || || |  |  |  | |   | |                  
TGCATTGATTTGCTTAAAGAATGCTCCCAACATACCAGCAAAAAACTTTCATGCATTGACGAGGTTGGATGAAAATAGAGCCAAGTGCCAGgtacttgacgttaaatcgtagtatttgtgatgtatttttgtggttttatttcaaacaaataattggacttgttttttgtag------------------

upper sequence: GLYMA10G34150.3 (Glycine max), 5'ss of exon 7
lower sequence: Vv13s0019g05250.t01 (Vitis vinifera), 5'ss of exon 7
TGCATTAATTTGCTTGAAGAATGCTCCTAACATTCCTGCCAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagtttataa-----acttaactttttaaaattgttctacaatagggaaaaaaaataacaactatcttctctgcattgtctcaattaaat--gcgcag
|||||| || ||  |||| |||||||| ||||| ||||| || || ||||||||||| ||| | ||||||||||| ||||||||||||||||| | | || || | |     || | | |   | | |  ||  |          || ||||  | | | ||  |   || ||    || ||   ||  | ||||
TGCATTGATATGTATGAAAAATGCTCCAAACATACCTGCAAAGAACTTTCATGCTTTGACTAGGTTAGATGAGAATAGAGCAAAATGTCAGgttaagtagcttgtgaccattacctcagtccatgatacagtcatgtttattatgaacaaaaggaaatcaataattgttgtatgaattcgatgtgatttgtgcag
















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|15338126|gb|BI498782.1|BI498782
EST:     AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG                         CTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
genomic: AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagt ... aaatgcgcagCTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
EST: gi|10236029|gb|BE804977.1|BE804977
EST:     AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG                         CTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
genomic: AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagt ... aaatgcgcagCTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
EST: gi|151394825|gb|EV264696.1|EV264696
EST:     AAA-TTTTCATGCTTTAACTCGTTTAGATGAGA-CAGAGCAAA-TGTCAG                         CTAGCC-TCAAGGCAG-TGTGT-CTATGATAAAGTG
genomic: AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagt ... aaatgcgcagCTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTG
EST: gi|254344943|gb|GR851426.1|GR851426
EST:     AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG                         CTAGCCCTCAAGGCAGGTGTCTTCTATGATAAAGTGTCAAATGTGACAATA
genomic: AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagt ... aaatgcgcagCTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
EST: gi|151403877|gb|EV273687.1|EV273687
EST:     AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG                         CTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
genomic: AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagt ... aaatgcgcagCTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
EST: gi|27426251|gb|CA937771.1|CA937771
EST:     AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG                         CTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
genomic: AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagt ... aaatgcgcagCTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
EST: gi|193519235|gb|FK475000.1|FK475000
EST:     AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG                         CTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA
genomic: AAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagt ... aaatgcgcagCTAGCCCTCAAGGCAGGTGTGTTCTATGATAAAGTGTCAAATGTGACGATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCATTAATTTGCTTGAAGAATGCTCCTAACATTCCTGCCAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAGgtaacgaagtttataaacttaactttttaaaattgttctacaatagggaaaaaaaataacaactatcttctctgcattgtctcaattaaatgcgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA