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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcctttcttagggcttgtttgaatatgaggaaaaatcagcaaaaggaaagaaaaatgctagagaatatttggaaagtaattttctgctgtttg...

Basic information

species Vitis vinifera
transcript Vv04s0159g00040.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0159g00040.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G65820.1 (Arabidopsis thaliana), 5'ss of exon 2
GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcctttct----tagggcttgtttgaatatgaggaaaaatcagcaaaaggaaagaaaaatgctagagaatatttggaaagtaattttctgctgtttg
||| || ||  | |  || |  || |||||  | ||||| |||||||| ||||| ||||||||||||||||| |||||||||    |   |     |   ||||| ||| | ||        |   | |   |  |   | |||  | | ||| | |||   |||               
GTACAACGTCCCGTATCCAACTCTATATGCAATAGAATCAGAAAACAAAGATGCTAAGCTCTTCAACTGTGTTCAGgtttgaaatatagttaaaacaatacttgtgtgattctgttttcttgt--actacttgttattgagatgtgataaaatttgtggtt-gtag--------------

upper sequence: Vv04s0159g00040.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: EFJ20468 (Selaginella moellendorffii), 5'ss of exon 2
GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcctttcttagggcttgtttgaatatgaggaaaaatcagcaaaaggaaagaaaaatgctagagaatatttggaaagtaattttctgctgtttg
 || |||||| ||| ||| |  ||||||||  | ||    || |||||||| |||||||| ||||| |||||||||||||   ||   ||||    | || |  || ||         ||  |   |   ||      |  |       ||||| | ||                 
CTACAAGGTGCCTTACCCAACTCTGTATGCTCTTGAGAGCGAGAACAAGGAGGCCAAGCTATTCAATTGTGTCCAGgtttttctctgctctt----cctggtgtaacatt--------tcttcttgattgaatcgtt-ttttctgcttcatttgcacag-----------------

upper sequence: Vv04s0159g00040.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: EFJ28449 (Selaginella moellendorffii), 5'ss of exon 2
GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcctttcttagggcttgtttgaatatgaggaaaaatcagcaaaaggaaagaaaaatgctagagaatatttggaaagtaattttctgctgtttg
 || |||||| ||| ||| |  ||||||||  | ||    || |||||||| |||||||| ||||| |||||||||||||   ||   ||||    | || |  || ||         ||  |   |   ||      |  |       ||||| | ||                 
CTACAAGGTGCCTTACCCAACTCTGTATGCTCTTGAGAGCGAGAACAAGGAGGCCAAGCTGTTCAATTGTGTCCAGgttttcctctgctctt----cctggtgtaacatt--------tcttcttgattgaatcgtt-ttttctgcttcatttgcacag-----------------

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|351030284|gb|FQ432222.1|FQ432222
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351024214|gb|FQ423637.1|FQ423637
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|352799089|gb|FQ477951.1|FQ477951
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351031126|gb|FQ444953.1|FQ444953
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|349826884|gb|FQ418975.1|FQ418975
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|71888045|gb|DT037100.1|DT037100
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|110374485|gb|EC939270.1|EC939270
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351035258|gb|FQ458615.1|FQ458615
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|71883563|gb|DT032618.1|DT032618
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|110696635|gb|EE072923.1|EE072923
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351043732|gb|FQ431085.1|FQ431085
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCTAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|110409116|gb|EC974772.1|EC974772
EST:     CAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: CAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|71887375|gb|DT036430.1|DT036430
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351015575|gb|FQ426817.1|FQ426817
EST:     ATGCGTTGGAATCTGAGAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|110377305|gb|EC942369.1|EC942369
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|110380879|gb|EC946178.1|EC946178
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|71889806|gb|DT038861.1|DT038861
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|110371361|gb|EC935325.1|EC935325
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|71881338|gb|DT030393.1|DT030393
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351030114|gb|FQ430856.1|FQ430856
EST:     ACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|71888803|gb|DT037858.1|DT037858
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|71884977|gb|DT034032.1|DT034032
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351033319|gb|FQ446551.1|FQ446551
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351024173|gb|FQ423596.1|FQ423596
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
EST: gi|351018836|gb|FQ425738.1|FQ425738
EST:     ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTCCAACTGTGTCCAG                         AGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG
genomic: ATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcc ... attttttcagAGAGGGCATCAAAATTCGCTGGAAATGATGCCAGTGTTCTTCGTGCTGATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAGgtttgattcctttcttagggcttgtttgaatatgaggaaaaatcagcaaaaggaaagaaaaatgctagagaatatttggaaagtaattttctgctgtttg

- - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttggaaa