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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaattggtggttcagttaagaatcctgtggttatagcataaaactgcagaacttagatgtgttagttgttacaaatggctatttgtttcccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT

Basic information

species Vitis vinifera
transcript Vv02s0012g02790.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g02790.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G34400.1 (Glycine max), 3'ss of exon 7
acaattggtg-gttcagttaagaatcctgtggtta--tagcataaaactgcagaacttagatgtgttagttgttacaaatggctatttgtttcccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
  ||||| |  |   ||| |  | | || |   ||    | |  ||| |||| | || |  ||||     || |         |  |||||||  || ||||||||| ||||||| ||||| ||||||||||||||| || | |||   
--aattgataagagaagtgattatttctctaaataatctgaactaaagtgcacagctgat-tgtgcacaatggtttttgctcatgattgtttcttatatgcagGACGGATAGTGCACTGAAGTTTGGTTGGTTTTTCATGTTCTACTTG
















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|351035676|gb|FQ463521.1|FQ463521
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351046180|gb|FQ442558.1|FQ442558
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|110705231|gb|EE081878.1|EE081878
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|352794074|gb|FQ479316.1|FQ479316
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|26258680|gb|CA809743.1|CA809743
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351034454|gb|FQ463267.1|FQ463267
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351034375|gb|FQ463188.1|FQ463188
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351037902|gb|FQ465140.1|FQ465140
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|110364860|gb|EC928418.1|EC928418
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|110704711|gb|EE081697.1|EE081697
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351052620|gb|FQ452532.1|FQ452532
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|352790200|gb|FQ481399.1|FQ481399
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351055369|gb|FQ441967.1|FQ441967
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|32461120|gb|CD802294.1|CD802294
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTTCTGGCGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351036160|gb|FQ464005.1|FQ464005
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351016089|gb|FQ432044.1|FQ432044
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|110392190|gb|EC957433.1|EC957433
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|22010972|gb|BQ796006.1|BQ796006
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|71884210|gb|DT033265.1|DT033265
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|110428271|gb|EC994738.1|EC994738
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351027248|gb|FQ444497.1|FQ444497
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351044367|gb|FQ452919.1|FQ452919
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTT
EST: gi|22010685|gb|BQ795719.1|BQ795719
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|71874794|gb|DT023849.1|DT023849
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351033642|gb|FQ462172.1|FQ462172
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351032807|gb|FQ461696.1|FQ461696
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|352798335|gb|FQ480360.1|FQ480360
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351033496|gb|FQ462147.1|FQ462147
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351039606|gb|FQ461473.1|FQ461473
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCCGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|26257869|gb|CA808932.1|CA808932
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|352790134|gb|FQ481333.1|FQ481333
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|110724316|gb|EE100035.1|EE100035
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351056762|gb|FQ443389.1|FQ443389
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351025681|gb|FQ426695.1|FQ426695
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351054105|gb|FQ450187.1|FQ450187
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
EST: gi|351044729|gb|FQ443260.1|FQ443260
EST:     TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAG                         GACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
genomic: TGCCCCCTTTCATATGTGCTGTGGTATAGGCCTCTCTATCGTGCAATGAGgtattcggtc ... ccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcagaacttagatgtgttagttgttacaaatggctatttgtttcccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT
                                     tttgtttcccattt  CT-rich tract
                                   tatttgttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaattggtggttcagttaagaatcctgtggttatagcataaaactgcagaacttagatgtgttagttgttacaaatggctatttgtttcccatttgcagGACGAATAGTGCTCTGAACTTTGGTTGGTTTTTCCTGGTGTACGCT

- - - ggtggtt
- - - - - - - - - - - - - - - - - - - - - -actgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggct