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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtgggttttggcttttcaagcagcgttaatttgattagttatgaaattttaaggccttgttctcaactatgtgctgttggttttctggcatctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGATTGTGAATCTTATAACGACCTCAAAGCTTGATGCTAAAATTGATTCAAAG

Basic information

species Vitis vinifera
transcript Vv00s0252g00070.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0252g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G16090.1 (Glycine max), 3'ss of exon 6
--------tggtgggttttggcttttcaagcagcgttaatttgattagttatgaaattttaaggccttgttctcaactatgtgctgttggttttctggcatctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGATTGTGAATCTTATAACGACCTCAAAGCTTGATGCTAAAATTGATTCAAAG
        || ||   |  ||   |  |     | |  |    |  |   |||| ||    |||  || ||    | ||    |        ||||    | |  |||||||||| |||| ||  | ||||||||||||||||| ||||| ||||||||||| ||||| ||   || ||||||||||||||| |||||||| ||  | 
gcttctcttgttgatatccggtggtctacttttcatgtaacacaccaa--atgacataccgaggattttttt---agtaaaaacca--aaacttctaatttttt-cagAGTGCTTGCTGAGAAGTTAAATTTGAATTATGAGGAGGCTGAGAGATGGATTGTTAATCTCATCCGGAGCTCAAAGCTTGATGCCAAAATTGACTCCGAA

upper sequence: Vv00s0252g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 6
tggtgggttttggcttttcaagcagcgttaatttgattagttatgaaattttaaggccttgttctcaactatgtgctgttggtt-----ttctggcatctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGATTGTGAATCTTATAACGACCTCAAAGCTTGATGCTAAAATTGATTCAAAG
   ||  | |    ||    | | | | |    |  | |  ||  | |  | || | | |  |    | | |||  |            ||||    | |  |||||||||| |||| ||  | ||||||||||||||||| ||||| ||||||||||| ||||| ||    | ||||||||||||||| |||||||| ||  | 
---tgcttctcttgttgattacctgtggtctacttttcatgtaacacacctaaatgacgtactggggatt-tgtagtaacaaccaaaacttctaatttttt-cagAGTGCTTGCTGAGAAGTTAAATTTGAATTATGAGGAGGCTGAGAGATGGATTGTTAATCTCATCCGTAGCTCAAAGCTTGATGCCAAAATTGACTCCGAA

upper sequence: Vv00s0252g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------------------------------------------------------------------------tggtgggttttggcttttcaagcagcgttaatttgattagttatgaaattttaaggccttgtt-ctcaactatgtgc---tgttgg--ttttctggcatctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGATTGTGAATCTTATAACGACCTCAAAGCTTGATGCTAAAATTGATTCAAAG
                                                                                                   |     || | |    |    |||| | | |  | ||| | ||  || |||||   | |||| ||| |   ||| |    | | |  |   || ||| || ||| |||| ||| ||||| |||| |||||||| || || |||||||||||||| || ||    ||||||||||||||||| || ||||||||  ||
gtaagttctcacatttggttgtatatgtttacacataactctgctctccggattgctcaatgtttggaattttctctattccttatctttcccaacacatgaaaattgccatatccagctatttaagttgagaagaattgttgcggtcttgtggtttaactttgtactcatgtcgagcctatatttcccttgtcagGGTACTTGCTGAAAAATTGAATCTGAACTATGAGGAGGCCGAGAGATGGATTGTGAACCTAATCCGCACCTCAAAGCTTGATGCCAAGATTGATTCTGAG

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|34544009|gb|CF512241.1|CF512241
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|71888199|gb|DT037254.1|DT037254
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110363505|gb|EC927099.1|EC927099
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110390743|gb|EC955669.1|EC955669
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|351035098|gb|FQ458455.1|FQ458455
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|34543920|gb|CF512152.1|CF512152
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|30302336|gb|CB979130.1|CB979130
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|349827029|gb|FQ421302.1|FQ421302
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110361713|gb|EC925206.1|EC925206
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|45770682|gb|CN006534.1|CN006534
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110709660|gb|EE085316.1|EE085316
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|30299800|gb|CB976594.1|CB976594
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|30302404|gb|CB979198.1|CB979198
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTTTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|351019002|gb|FQ426501.1|FQ426501
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|71883037|gb|DT032092.1|DT032092
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|34544541|gb|CF512773.1|CF512773
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGATCGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110385422|gb|EC949946.1|EC949946
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|46918748|gb|CN548077.1|CN548077
EST:     GAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: GAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110701694|gb|EE079554.1|EE079554
EST:     CATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110374343|gb|EC939024.1|EC939024
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|110690210|gb|EE067120.1|EE067120
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|26262647|gb|CA813710.1|CA813710
EST:     TTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: TTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|352768500|gb|FQ467456.1|FQ467456
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|34543854|gb|CF512086.1|CF512086
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
EST: gi|32459206|gb|CD800380.1|CD800380
EST:     CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGG                         AGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT
genomic: CTTTTTATTTTTGAGACATACTGCCGAATACATCAACGAATTGACATGGGgtatatttat ... catctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggtgggttttggcttttcaagcagcgttaatttgattagttatgaaattttaaggccttgttctcaactatgtgctgttggttttctggcatctggcagAGTGCTTTCTGACAAACTGAATTTGAATTATGAGGAAGCTGAAAGATGGATTGTGAATCTTATAACGACCTCAAAGCTTGATGCTAAAATTGATTCAAAG

tggtggg
- - - - - tggcttt
- - - - - - - - -tcaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttctgg