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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttcttaggaatcttcatcctgttttccatttgagctttgatatcctactgttgattgaaattctgaaaacactgggttgcttcttgtgcag

Basic information

species Vitis vinifera
transcript Vv16s0022g02110.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA10G38680.1 (Glycine max), 5'ss of exon 11
TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttcttaggaatcttcatcctgttttccatttgagctttgatatcctactgttgattgaaattctgaaaacactgggttgcttcttgtgcag--------------------------------
|||| ||||||||||||| ||||||||||| ||||| ||||| |  |||||| || |||   |||| || || ||||| || ||||| ||||||  ||| |||    |    ||| |  | | || |||||||    |||  |     | |  |  || ||||     |||| ||   ||| |  || |  |                                 
TGTGGTTCCTGCATTCAAGTCTGCTGCTGAAGAGCTTTTGAACAGTTCTGGTTTACCAGTCATTGAATTACTGGCAAAGGCTCTTGCCAAGGCTGTTgtgagtc---aatgttctcccacgttttctccatttattttttcttgcaaaatttct--tttaaatatattaaaccctcatttgttatttttctaacctggaaaattgtcttatcatgtaatatgcag
















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|351046770|gb|FQ454380.1|FQ454380
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|349818664|gb|FQ403498.1|FQ403498
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351040229|gb|FQ425315.1|FQ425315
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|352790432|gb|FQ478072.1|FQ478072
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351048608|gb|FQ448882.1|FQ448882
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351033398|gb|FQ462049.1|FQ462049
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|161720145|gb|FC066753.1|FC066753
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|161709071|gb|FC058368.1|FC058368
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCTAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351039800|gb|FQ464838.1|FQ464838
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|349809274|gb|FQ399048.1|FQ399048
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|352798464|gb|FQ480489.1|FQ480489
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|110391302|gb|EC956267.1|EC956267
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|349812243|gb|FQ411838.1|FQ411838
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351056075|gb|FQ453536.1|FQ453536
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|71870308|gb|DT019363.1|DT019363
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351055609|gb|FQ452074.1|FQ452074
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|30253071|gb|CB970622.1|CB970622
EST:     CCGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351012917|gb|FQ430480.1|FQ430480
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|37184768|gb|CF604122.1|CF604122
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|110690637|gb|EE067971.1|EE067971
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351052845|gb|FQ456573.1|FQ456573
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|351035558|gb|FQ463403.1|FQ463403
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
EST: gi|349807331|gb|FQ401323.1|FQ401323
EST:     CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT                         GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT
genomic: CTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttctt ... tcttgtgcagGGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCTgtaagttcttaggaatcttcatcctgttttccatttgagctttgatatcctactgttgattgaaattctgaaaacactgggttgcttcttgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG