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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAACATCAACGACAAGCTGGCCTCCCCACCATTCCCTCAACAATTGATGAAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggcttttttgtccctttgaagcaacctttgtatggtgtttgaagagaacataatggggatgaaatgcatcaagtctgcctaggcattcatgaaatgt...

Basic information

species Vitis vinifera
transcript Vv13s0067g00180.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g00180.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA14G36610.1 (Glycine max), 5'ss of exon 6
ACAACATCAACGACAAGCTGGCCTCCCCACCATTCCCTCAACAATTGATGAAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggcttttttgtccctttgaagcaacctttgtatggtgtttgaagagaacata---atggggatgaaatgcatcaagt-ctgcctaggcattcatgaaatgt----
 |   ||||||||||||||||||   | || ||||||||||| ||||| || ||| ||||||| || || || ||| ||||||| ||||| ||| | |||||     || |  || ||      |  ||| |  |  ||||   | ||   ||||   ||| ||   ||||| |  |  | ||   ||    || | | | | |    
TCGGAATCAACGACAAGCTGGCCAAGCAACAATTCCCTCAACCATTGAGGATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgt-----ttgtcatctctcca---ccccctctacaaagtgtgaaatgatttcatattgatgagggaaaaatgaagtatatacttagtaatgctttaaggagtttattg
















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|29783239|gb|CB349281.2|CB349281
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGNTGAGNTGCCAGTCGGCCATAGATGCTCT
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTG-GTTGCCAGTCGGCCATAGATGCTCT
EST: gi|110375070|gb|EC940027.1|EC940027
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|33402644|gb|CF208271.1|CF208271
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110383780|gb|EC948180.1|EC948180
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110380907|gb|EC946209.1|EC946209
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|349833114|gb|FQ416492.1|FQ416492
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGGCATAGATGCTCTACAAGAGATAA
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAA
EST: gi|110719007|gb|EE096488.1|EE096488
EST:     AGAAATGAAGAATAACCCATTTC-TGCGGGTTGACCTACCAGACCTTCCG                         GAGAGGGTTGG
genomic: AGAGATGGAGACTAACCCATT-CATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGG
EST: gi|110414288|gb|EC980115.1|EC980115
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110421750|gb|EC988050.1|EC988050
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110724872|gb|EE101081.1|EE101081
EST:     AGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAAGCT-CAG                         GAGAGGGTTGGTTGCCCGTCNGCCATAAATGCTCTACAAGAGATAAGGCG
genomic: AGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGA-GCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCG
EST: gi|34545408|gb|CF513640.1|CF513640
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110396845|gb|EC962547.1|EC962547
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|30252993|gb|CB970544.1|CB970544
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110415169|gb|EC981048.1|EC981048
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110716814|gb|EE092126.1|EE092126
EST:     AAGAGATGGAGACTAACCC-TTCATGCGGGTTGACCTAC-AGAGCTTCAA                         GAGAGGGTTGGT
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGT
EST: gi|110392028|gb|EC957151.1|EC957151
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|34545999|gb|CF514231.1|CF514231
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110691653|gb|EE070003.1|EE070003
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110416949|gb|EC982963.1|EC982963
EST:     AAGAGATGGAGACTAACCCATTCATCCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|30133817|gb|CB919156.1|CB919156
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|34545007|gb|CF513239.1|CF513239
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110398276|gb|EC964521.1|EC964521
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110411105|gb|EC976807.1|EC976807
EST:     AAGAGATGGAGACTAACCCATTCATCCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|71871274|gb|DT020329.1|DT020329
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|30329394|gb|CD012656.1|CD012656
EST:     AAGAGATGGAGACTAACCCATTCATCCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|33402734|gb|CF208361.1|CF208361
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTTTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110690740|gb|EE068165.1|EE068165
EST:     AAGAGATGGAGACTAACCCCTCC-TGCGGGTTGACCTACCAGAACTTCAG                         GAGAGGGTTGGTTGCCCGTCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGG
EST: gi|110711424|gb|EE087889.1|EE087889
EST:     AAGAGAAGGAGACTAACCCATTCATGCGGGGTGACCTAACAAAGCTTCCG                         GAGAAGGTTGGTTGC
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGC
EST: gi|110386430|gb|EC951024.1|EC951024
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110423791|gb|EC990142.1|EC990142
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|34545495|gb|CF513727.1|CF513727
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|110382708|gb|EC947025.1|EC947025
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
EST: gi|34319926|gb|CF372680.1|CF372680
EST:     AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAG                         GAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG
genomic: AAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggctttt ... tcttttacagGAGAGGGTTGGTTGCCAGTCGGCCATAGATGCTCTACAAGAGATAAGGCGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAACATCAACGACAAGCTGGCCTCCCCACCATTCCCTCAACAATTGATGAAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggcttttttgtccctttgaagcaacctttgtatggtgtttgaagagaacataatggggatgaaatgcatcaagtctgcctaggcattcatgaaatgt

- - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaaa