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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgaaggctgtgaaatgctagagttctgtgtcactcatttaccaaattaaattcttgactcataaggtggctttgtggttttctacgatattattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCTTCAGCTATGGCTGCCTTAACCTCTGCATTTAGGCCTTCCTCTGGAAACA

Basic information

species Vitis vinifera
transcript Vv08s0007g08690.t01
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G081322_T01 (Zea mays), 3'ss of exon 21
ggtgaaggctgtgaaatgctagagttctgtgtcactcatt-taccaaattaaattcttgactcataaggtggct--ttgtggttttctacgatattattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCTTCAGCTATGGCTGCCTTAACCTCTGCATTTAGGCCTTCCTCTGGAAACA
 || |  |||   || |        || || |||   |   || ||| ||   | |     |      |  |||          | ||  |   || || ||| |  | || | | | |   | ||  || |  | |  |  ||||||||||||||||| |||||||||||  |||||||  |||  || ||  |   |   |
-gt-actgctaataattttcttccctccgtttcaaaaacagtaacaatttccttccggatttttcttagcagctaaccaccaggtcctgtgggttttttccagTCAGATGAGAAGCCCACAAGCTCAGATGACAGCGAGCATACTCAACGAGCTTCAGCAATGGCTGCCTTGTCCTCTGCCCTTAATCCATCGACAAAACCTA
















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|351027047|gb|FQ439908.1|FQ439908
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349807848|gb|FQ402239.1|FQ402239
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCC
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349819933|gb|FQ404655.1|FQ404655
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349820408|gb|FQ406964.1|FQ406964
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349823009|gb|FQ399988.1|FQ399988
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349812248|gb|FQ411843.1|FQ411843
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCC
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349809695|gb|FQ398308.1|FQ398308
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|351053243|gb|FQ456729.1|FQ456729
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349813824|gb|FQ414058.1|FQ414058
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349815297|gb|FQ400452.1|FQ400452
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|110376739|gb|EC941812.1|EC941812
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|351015572|gb|FQ426814.1|FQ426814
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|110360867|gb|EC924301.1|EC924301
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349810179|gb|FQ401625.1|FQ401625
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349820692|gb|FQ408521.1|FQ408521
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349809180|gb|FQ398953.1|FQ398953
EST:     CATTTCAGAAGAAGGTCTTCTTGCTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|351027936|gb|FQ425837.1|FQ425837
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349812839|gb|FQ410481.1|FQ410481
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|110378230|gb|EC943350.1|EC943350
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349824653|gb|FQ413320.1|FQ413320
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349819164|gb|FQ412058.1|FQ412058
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349807555|gb|FQ401914.1|FQ401914
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349818825|gb|FQ409359.1|FQ409359
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|351016363|gb|FQ446223.1|FQ446223
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349810657|gb|FQ402900.1|FQ402900
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349818088|gb|FQ408863.1|FQ408863
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349830660|gb|FQ416958.1|FQ416958
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|110367116|gb|EC931039.1|EC931039
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|71870008|gb|DT019063.1|DT019063
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|110360995|gb|EC924443.1|EC924443
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349819142|gb|FQ412036.1|FQ412036
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|349820087|gb|FQ404809.1|FQ404809
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|71870041|gb|DT019096.1|DT019096
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|110363622|gb|EC927224.1|EC927224
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
EST: gi|110426531|gb|EC992944.1|EC992944
EST:     CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAG                         ACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT
genomic: CATTTCAGAAGAAGGTCTTCTTACTCTTTGGTGCAGGCCATGCTGCAGAGgtaaatgctt ... attattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattaaattcttgactcataaggtggctttgtggttttctacgatattattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCTTCAGCTATGGCTGCCTTAACCTCTGCATTTAGGCCTTCCTCTGGAAACA
        tcttgac  putative branch site (score: 3)
                                           atattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtgaaggctgtgaaatgctagagttctgtgtcactcatttaccaaattaaattcttgactcataaggtggctttgtggttttctacgatattattgcagACCCAAGATAGGTCTAATGGATCGAATCAAGGGGGCCCAACTCAACGAGCTTCAGCTATGGCTGCCTTAACCTCTGCATTTAGGCCTTCCTCTGGAAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - gaaatgc
- - - - - - - - - - - - - - - - cactcat
- - - - - - - - - - - - - - - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggcttt