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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGGATATCTTGATACTTGATACACATGCTGAAGTTTTTGTTTGGGTTGGTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgcttaagcagcttatgccctttcaatattactcttcaataatgtatcttattcattatggaagctcttttgcag

Basic information

species Vitis vinifera
transcript Vv08s0007g08690.t01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA02G32100.1 (Glycine max), 5'ss of exon 16
TGAGGATATCTTGATACTTGATACACATGCTGAAGTTTTTGTTTGGGTTGGTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgc-ttaagcagcttatgcccttt-----caatattactcttcaat-aatgtatcttattcattatggaagctcttttgcag
 ||||||||| | |||||||| |||||||  ||||| ||| ||||| |||||||  |||| || || ||||||||||| | ||||||||| ||||| ||||||       ||| || |||||| | |||       ||||| |  |  | |  || |   | || | |  |  ||  |||    |||
GGAGGATATCCTTATACTTGACACACATGTAGAAGTGTTTATTTGGATTGGTCATTCTGTGGACCCAAAGGAAAAGCAAAATGCTTTTGATATCGGCCAGgtaaacatgctaaacaacttatggcttttatctctgatatttccttctacttgatattcttgatgcttactcaaaaatctccctcag

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA10G21350.2 (Glycine max), 5'ss of exon 17
TGAGGATATCTTGATACTTGATACACATGCTGAAGTTTTTGTTTGGGTTGGTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgc-ttaagcagcttatgcccttt-----caatattactcttcaat-aatgtatcttattcattatggaagctcttttgcag
 ||||||||| | |||||||| |||||||| ||||| ||| ||||| |||||||  |||| || ||||| |||||||  | |||||||||||| || ||||||       ||| ||  ||||| | |||     | ||||| |  |  | |  || |   | || | |  |  ||  | |    |||
GGAGGATATCCTTATACTTGACACACATGCAGAAGTGTTTATTTGGATTGGTCATTCTGTGGAACCCAAAGAAAAGCGAAATGCTTTTGAAATTGGCCAGgtaaacatgctaaacaatttatggcttttatctcctatattgccttctacttgatattcttgatgcttactcaaaaatttccctcag

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA03G29280.1 (Glycine max), 5'ss of exon 17
TGAGGATATCTTGATACTTGATACACATGCTGAAGTTTTTGTTTGGGTTGGTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgta--cttgcttaagcagcttatgccctttcaatattactcttcaataatgtatcttattcattatggaagctcttttgcag
 ||||||||| |||| ||||| ||||| || ||||| ||||| ||| ||||||||  ||| || || || |||||||| | |||||||||||| |  ||||||  | |||| ||  |  |   |||  |||| |     | ||   |  | ||  | ||  |  || |||  | | |  |||
AGAGGATATCCTGATCCTTGACACACACGCAGAAGTGTTTGTATGGATTGGTCAGTGTGTGGACCCAAAAGAAAAGCAAAATGCTTTTGAAATTGCCCAGgtaaacatgctcaacaaattagagcc--ttcatttcccttatttcct--tttacttgatgtacaatagaaattttctctcag

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT3G57410.1 (Arabidopsis thaliana), 5'ss of exon 19
TGAGGATATCTTGATACTTGATACACATGCTGAAGTTTTTGTTTGGGTTGGTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtact-tgcttaagcagcttatgccctttcaatatt-actcttcaataatgtatct--tattcatt--atggaagctcttttgcag
 ||||| ||     |||| ||||| ||||||||||||||||| |||||||||||   ||| || || |||||||| || | ||| ||||| || || || ||| | ||| | | ||| ||     ||    ||| | | || ||  |  | | |||  | ||   |   || |   | ||  ||||
GGAGGAAATGCATTTACTAGATACTCATGCTGAAGTTTTTGTCTGGGTTGGTCAATGTGTGGACCCTAAGGAAAAACAAACTGCCTTTGAGATTGGCCAAgtaatatgcctcatcagttttgcttctcagcatagtgattcctccttcttttctctcttgtttgctcattgtacagttttgcgcag

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 5'ss of exon 18
TGAGGATATCTTGATACTTGATACACATGCTGAAGTTTTTGTTTGGGTTGGTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgta----cttgcttaagcagcttatgcc---ctttcaatattactcttcaataatgtatcttattcattatggaagctcttttgcag
||||||||| |   | || || || ||||||||||||||||| |||||||||||   ||| || || ||||||||||| | ||  ||||| || || || |||     || ||||   |  ||    |    |||   | ||  ||||   |  |     || ||||||  |  || |  |  ||||
TGAGGATATATATTTCCTAGACACCCATGCTGAAGTTTTTGTCTGGGTTGGTCAATGTGTGGAGCCTAAGGAAAAGCAAACTGTATTTGAGATTGGCCAAgtaactatttccttatcaattttgcttcttgttttgcttctttttcttttcttgtactgtttgttcattgagacagtttatgagcag

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:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349807848|gb|FQ402239.1|FQ402239
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349819933|gb|FQ404655.1|FQ404655
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349820408|gb|FQ406964.1|FQ406964
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349823009|gb|FQ399988.1|FQ399988
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349812248|gb|FQ411843.1|FQ411843
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349809695|gb|FQ398308.1|FQ398308
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|351053243|gb|FQ456729.1|FQ456729
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349813824|gb|FQ414058.1|FQ414058
EST:     GAAAAGCAGAGTGCTTTTGATATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349815297|gb|FQ400452.1|FQ400452
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|351015572|gb|FQ426814.1|FQ426814
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349810179|gb|FQ401625.1|FQ401625
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349820692|gb|FQ408521.1|FQ408521
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349809180|gb|FQ398953.1|FQ398953
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|351027936|gb|FQ425837.1|FQ425837
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349812839|gb|FQ410481.1|FQ410481
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349824653|gb|FQ413320.1|FQ413320
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349819164|gb|FQ412058.1|FQ412058
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349807555|gb|FQ401914.1|FQ401914
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349818825|gb|FQ409359.1|FQ409359
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|351016363|gb|FQ446223.1|FQ446223
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349810657|gb|FQ402900.1|FQ402900
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349818088|gb|FQ408863.1|FQ408863
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349830660|gb|FQ416958.1|FQ416958
EST:     AAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: AAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|71870008|gb|DT019063.1|DT019063
EST:     GTCAGACTGTAGATCCCAAAGAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|110360995|gb|EC924443.1|EC924443
EST:     TGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: TGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349819142|gb|FQ412036.1|FQ412036
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|349820087|gb|FQ404809.1|FQ404809
EST:     GAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
EST: gi|71870041|gb|DT019096.1|DT019096
EST:     GTCAGACTGTAGATCCCAAAGAAAAGCAGAGTGCTTTTGAAATCGGTCAG                         AAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA
genomic: GTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgctt ... tcttttgcagAAATACATTGAGGTTGCTGCATCTCTGGAGGGGTTGGCTCTAAATGTACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGGATATCTTGATACTTGATACACATGCTGAAGTTTTTGTTTGGGTTGGTCAGACTGTAGATCCCAAGGAAAAGCAGAGTGCTTTTGAAATCGGTCAGgtacttgcttaagcagcttatgccctttcaatattactcttcaataatgtatcttattcattatggaagctcttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA