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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGACTGTTGGCCAGTTTGTTTATGTTGTCCGGAAGAGGATTAAGCTCACTCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaaatccattttcaccctgtattgaagttttgttctaacattgtctgaatgctaagtttggtacttatgggtgacgtttctgttgttttag

Basic information

species Vitis vinifera
transcript Vv12s0059g00660.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g00660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os07g32800.1 (Oryza sativa), 5'ss of exon 5
CTGACTGTTGGCCAGTTTGTTTATGTTGTCCGGAAGAGGATTAAGCTCACTCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaaatccattttcaccctgtattgaagttttgttctaacattgtctgaatgctaagtttggtacttatgggtgacgtttctgttgttttag---
|| ||||||||||||||||| ||||| || ||||||||||||||||| |  || || ||||| || ||  | ||| | |||||||   ||||||||||||||      |||| |||| |       | ||||  | |  || | | ||   ||      |  ||||    |||||   |  ||  |   || | || |   
CTTACTGTTGGCCAGTTTGTCTATGTGGTTCGGAAGAGGATTAAGCTTAGCCCAGAAAAGGCCATCTTTGTCTTTGTGAAGAACACATTGCCGCCAACTGgt------aaattcattgt-------tcttgatttgtcattgtcatatcacctacccttttggtttc---cttatattttgcgcatacattctattggcag

upper sequence: Vv12s0059g00660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA12G10510.1 (Glycine max), 5'ss of exon 5
CTGACTGTTGGCCAGTTTGTTTATGTTGTCCGGAAGAGGATTAAGCTCACTCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaaatccattttcaccctgtattgaagttttgttctaacattgtctgaatgctaagtttg-gtacttatgggtgacgtttctgttgttttag
 |||||||||| |||||||| ||||| || |||||||| || ||||| | ||||||||||||||| ||||||||| | ||||| ||| | || ||||||||| | | | || | |   | |   | | | ||| | || || |       ||| |  | ||| |||| | | | |   ||||  ||||||||  |  ||
TTGACTGTTGGTCAGTTTGTGTATGTGGTGCGGAAGAGAATCAAGCTGAGTCCTGAGAAGGCGATCTTCATTTTTGTTAAGAATATTTTACCACCAACTGgtaacaaagaa-caaacataattgtatgtggaa-tattattgt-------tcttatggttaattttgtgaagtgagctgtgat-tttctgtttatgcag

upper sequence: Vv12s0059g00660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA06G46270.2 (Glycine max), 5'ss of exon 5
CTGACTGTTGGCCAGTTTGTTTATGTTGTCCGGAAGAGGATTAAGCTCACTCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaaatccattttcaccctgtattgaagttttgttctaacattgtctgaatgctaagtttg-gtacttatgggtgacgtttctgttgttttag
 ||||||||||||||||||| ||||| || |||||||| || ||||| | ||| |||||||| || ||||||||| | ||||| ||| |||| ||||||||| | ||| | |  |||||     ||| |    |   | || |       ||| |  ||||| |||| | | | |   ||||  ||||||||  |  ||
TTGACTGTTGGCCAGTTTGTGTATGTGGTGCGGAAGAGAATCAAGCTGAGTCCCGAGAAGGCCATCTTCATTTTTGTTAAGAATATTTTGCCACCAACTGgtaatatata-tggattttgtgggtgtgtatgtggaatattatggt----tcttatggctaattttgtgaagtgagctgtgat-tttctgtttatgcag

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|34550263|gb|CF518481.1|CF518481
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|30298947|gb|CB975741.1|CB975741
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110376041|gb|EC941080.1|EC941080
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|32459176|gb|CD800350.1|CD800350
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110727718|gb|EE104797.1|EE104797
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|29785432|gb|CB342415.2|CB342415
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110377132|gb|EC942192.1|EC942192
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110715799|gb|EE094264.1|EE094264
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110702636|gb|EE078779.1|EE078779
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|22007625|gb|BQ792659.1|BQ792659
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110415048|gb|EC980917.1|EC980917
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|30297965|gb|CB974759.1|CB974759
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110717624|gb|EE093643.1|EE093643
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|30298891|gb|CB975685.1|CB975685
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110411241|gb|EC976948.1|EC976948
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110691284|gb|EE069210.1|EE069210
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|28963447|gb|CB342480.1|CB342480
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|110402467|gb|EC968868.1|EC968868
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|34550348|gb|CF518566.1|CF518566
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|351017545|gb|FQ435898.1|FQ435898
EST:     TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
EST: gi|30131346|gb|CB916685.1|CB916685
EST:     TCCTGAGAAGGCGATATTCTTTTTTATCAAGAACATTCTGCCGCCAACTG                         CGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC
genomic: TCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaa ... gttgttttagCGGCTATGATGTCTGCAATTTATGAGGAAAACAAGGATGAAGATGGTTTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGACTGTTGGCCAGTTTGTTTATGTTGTCCGGAAGAGGATTAAGCTCACTCCTGAGAAGGCGATATTCATTTTTATCAAGAACATTCTGCCGCCAACTGgtgagataaaatccattttcaccctgtattgaagttttgttctaacattgtctgaatgctaagtttggtacttatgggtgacgtttctgttgttttag

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