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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttcttttgaattttattatcgaaccgttttcttttgaagagcgttttagatctgtgctttgtgagttgtgcttttgcgttttgcgttggtttt...

Basic information

species Glycine max
transcript GLYMA11G19550.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 3
CTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaa--cctttcttttgaattttattatcgaaccgttttcttttgaagagcgttttagatctgtgctttgtgagttgtgcttttgcgttttgcgttggtttt
|||||| |||||||||||||| || || || ||||| ||||| ||||| || ||||||||||||||   |||||| || ||||||   || ||  |  |||| |   || |||||  | | |  || |       ||| ||  |  | |    ||   |||||| || ||||  ||||  || | | |||| | ||  | | 
CTGTTCGGAGAACAACAAGCGTCTCATTCACTTCTCGACTTGTGAAGTCTATGGGAAAACGATTGGGAGCTTTCTTCCCAAAGATTCACCCCTCTGGCAGgtgagatctctctttcaattctccttttttttttttttcctcatacataagagttcgaatctgt-ctctgtgtattgtagttgt-cttttttcatttttata

upper sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 3
CTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttcttttgaattttattatcgaaccgttttcttttgaagagcgttttagatctgtgctttgtgagttgtgcttttgcgttttgcgttggtttt------
|||||| || ||||||||||| || || || ||||| ||||| ||||| || ||||||||||||||   |||||| || ||||||   ||||| ||  |||| |  | ||| |     | | |  | |    ||||| |||    |     ||| | | |||  ||| |   ||   |   |     | |  |  || ||      
CTGTTCAGAAAACAACAAGCGTCTCATTCACTTCTCGACTTGTGAAGTCTATGGGAAAACGATTGGGAGCTTTCTTCCCAAAGATTCACCTCTCCGGCAGgtgagatctctctc---ctctgtatttgttttgttttgttt---ggttttgtttggttttgttttttttttttttcacgcatagagctcgaatctgtcttctgtat
















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|7478600|gb|AW666329.1|AW666329
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|209702421|gb|BW656397.1|BW656397
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|298195051|gb|HO043579.1|HO043579
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|6481482|gb|AW200753.1|AW200753
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|7283460|gb|AW596067.1|AW596067
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|33390053|gb|CA853260.1|CA853260
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|10237322|gb|BE806210.1|BE806210
EST:     ACGGGAAAACGATTGGAGCCTTTCTGCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGACTCTCCTTGCATTTTTGGC
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|9440275|gb|BE440783.1|BE440783
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|27445843|gb|CA952966.1|CA952966
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|18039430|gb|BM307724.1|BM307724
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|193518856|gb|FK474537.1|FK474537
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
EST: gi|14008730|gb|BG725334.1|BG725334
EST:     ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAG                         GATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT
genomic: ACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttc ... gttttgttagGATCCGGCATACTATGTTCTTAAAGAAGACGAATCTCCTTGCATTTTTGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTCTTCGCAAGgtaacctttcttttgaattttattatcgaaccgttttcttttgaagagcgttttagatctgtgctttgtgagttgtgcttttgcgttttgcgttggtttt

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