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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAGAGAGTCAGGCTGTGAAAATTGCCCCTTCTTTAAGATGGATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcacttctacttctattcccccttgtctttttcttgttttctatgaatgtgatataggattttcttgaagaaatatagatgaaagaaaatgcgtgt...

Basic information

species Vitis vinifera
transcript Vv10s0071g01040.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0071g01040.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G00250.1 (Glycine max), 5'ss of exon 3
TTCAGAGAGTCAGGCTGTGAAAATTGCCCCTTCTTTAAGATGGATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcacttctacttctattccccc----ttgtctttttcttgttttctatgaatgtgatataggattttcttgaagaaatatagatgaaagaaaatgcgtgt
|||||||||||||||||||| || ||| | |||||||||||||| ||||| || ||||||||||| |||||||||||||| |||||||||||||  |   |   | |||| || |  |    ||  |||   |||    ||| |  ||      |  | |||||||     | |  |  ||  | |          
TTCAGAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGAGCGTGTTGTTGATTGCACTACTCCCAATTTTAATGGgtttgtgatatcaattctttttcatcaaaattcccttcacctttgaatctctcgatactcattctgtttttcttcttccatttgatttgccacag---------

upper sequence: Vv10s0071g01040.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA07G40390.2 (Glycine max), 5'ss of exon 2
TTCAGAGAGTCAGGCTGTGAAAATTGCCCCTTCTTTAAGATGGATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaag--cacttctacttctattcccccttgtctttttcttgttt---tctatgaatgtgatataggattttcttgaagaaatatagatgaaagaaaatgcgtgt
|||||||||||||||||||| || ||| | |||||||||||||| ||||| |||||||  ||||| |||||||||||||| |||||||||||||  |   |  || | |  | |||  |    ||   |||   |||   ||| |  ||      |  | |||||||     | |  |  |      |         
TTCAGAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCATGAGCTAGTTGTTGATTGCACTACTCCCAATTTTAATGGgtttgtttatatcaattctttttcttcaaaatccccttcacctttgaatctctcgatactcattctgtttttcttcttccatttgattttgccacag--------

upper sequence: Vv10s0071g01040.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G00250.2 (Glycine max), 5'ss of exon 3
TTCAGAGAGTCAGGCTGTGAAAATTGCCCCTTCTTTAAGATGGATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcacttctacttctattccccc----ttgtctttttcttgttttctatgaatgtgatataggattttcttgaagaaatatagatgaaagaaaatgcgtgt
     ||||||||||||||| || ||| | |||||||||||||| ||||| || ||||||||||| |||||||||||||| |||||||||||||  |   |   | |||| || |  |    ||  |||   |||    ||| |  ||      |  | |||||||     | |  |  ||  | |          
-----AGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGAGCGTGTTGTTGATTGCACTACTCCCAATTTTAATGGgtttgtgatatcaattctttttcatcaaaattcccttcacctttgaatctctcgatactcattctgtttttcttcttccatttgatttgccacag---------

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|110408198|gb|EC973824.1|EC973824
EST:     GATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|110384025|gb|EC948438.1|EC948438
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|33408217|gb|CF213844.1|CF213844
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|352795434|gb|FQ476549.1|FQ476549
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCCAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|110688876|gb|EE067932.1|EE067932
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|30296227|gb|CB973021.1|CB973021
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|33408305|gb|CF213932.1|CF213932
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|110407013|gb|EC972604.1|EC972604
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|351049428|gb|FQ450029.1|FQ450029
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAACTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|110412486|gb|EC978236.1|EC978236
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|294964123|gb|GW837926.1|GW837926
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTGCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|30296163|gb|CB972957.1|CB972957
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|30296421|gb|CB973215.1|CB973215
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|26258793|gb|CA809856.1|CA809856
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|26264415|gb|CA815478.1|CA815478
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
EST: gi|77585520|gb|DV221849.1|DV221849
EST:     GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG                         GATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG
genomic: GATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcactt ... tgtgttatagGATAATTTCGATGATGGATCCAAGTAGAAGTTGGGCTGCTCGGTGGCTTCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCAGAGAGTCAGGCTGTGAAAATTGCCCCTTCTTTAAGATGGATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGGgtaagcacttctacttctattcccccttgtctttttcttgttttctatgaatgtgatataggattttcttgaagaaatatagatgaaagaaaatgcgtgt

- - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa