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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGAAGCATGGCTTTAATGATGCAATTGCTAAAGTGGGTCTGACCAAGTTCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatttttggggagcttcagttgtaaactaacgtcttgtggattataaagttatcactatcattctttttcctctcaatgttatttaacaatcaa...

Basic information

species Vitis vinifera
transcript Vv10s0003g00300.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g00300.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA13G24360.1 (Glycine max), 5'ss of exon 9
GATGAAGCATGGCTTTAATGATGCAATTGCTAAAGTGGGTCTGACCAAGTTCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt-tttggggagcttcagttgtaaactaacgt---cttgtggattataaagttatcactatcattctttttcctctcaatgttatttaacaatcaa
| ||||||| ||||| |||||||| ||||||||||| ||| ||  ||||||| ||||||||||||| ||||| || |||||||| || |||||||| |||||| ||  || |||  |  ||   ||||  ||  |    |    |||  |||||     |  | |  |  |    |||       ||  |||  |   |||   
GTTGAAGCACGGCTTCAATGATGCTATTGCTAAAGTAGGTTTGGTCAAGTTCGTCTCAGATCTCTTCTGGGTTGGTATGTTTTACCATCTCTACAACCAGgtaaatccttctttttgatgcaatagtttaaattttggatgagtttgaagattaccttctacttaaaaaaaggtatttaatggaaaacattacatg-taat---

upper sequence: Vv10s0003g00300.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA07G32190.1 (Glycine max), 5'ss of exon 9
GATGAAGCATGGCTTTAATGATGCAATTGCTAAAGTGGGTCTGACCAAGTTCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacatt-atttttggggagcttcagttgtaaactaacgt---cttgtggattataaagttatcactatcat-tctttttcctctcaatgttatttaacaatcaa
| ||||| | ||||| |||||||| ||||||||||| ||| ||  ||||||| ||||||||||||| ||||| || |||||||| || |||||||| |||||| ||  || |||  |  ||   ||||  ||  |    |    |||   ||||     | || |  |  |  | |||        |||   || ||| |     
GTTGAAGAACGGCTTCAATGATGCCATTGCTAAAGTAGGTTTGGTCAAGTTCGTCTCAGATCTCTTCTGGGTTGGTATGTTTTACCATCTCTACAACCAGgtaaatccatctttttgatgcaatagtttaaattttggatgagtttgaaaattaccttctaattaaaaaaacgtatttaatgaaaaaattgcatgtaata-----

upper sequence: Vv10s0003g00300.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT5G46110.1 (Arabidopsis thaliana), 5'ss of exon 9
GATGAAGCATGGCTTTAATGATGCAATTGCTAAAGTGGGTCTGACCAAGTTCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatttttggggagcttcagttgtaaactaacgtcttgtggattataaagttatcactatcattctttttcctctcaatgttatttaacaatcaa
  | || ||||| ||    || || ||||||||||| ||  |||| || ||| |||| |||||||| ||||| ||||||||||| || |||||||||||||||   ||    |    || | || |  | ||| |    |||| |  ||||||||  | |   | ||||       |      ||               
ACTTAACCATGGTTTCGCCGACGCGATTGCTAAAGTTGGAATGACTAAATTCATCTCTGATCTCTTCTGGGTTGGAATGTTTTACCATCTCTACAATCAGgtaatgtaaaactca--agttacaatctttaaccataaacttgcgt-ttataaaggaaactaaaacattgaggaaaccacggttgcag------------

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|77583035|gb|DV220554.1|DV220554
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|26265652|gb|CA816715.1|CA816715
EST:     TCCTCTCAGATCTCTTTTGGGTGTGAATGTTTTATCACCTCTACCATCAG                         CTAGCTACCAACACCCTGGAGAGA
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGA
EST: gi|46910969|gb|CN546344.1|CN546344
EST:     TTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|28965272|gb|CB344305.1|CB344305
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCTCACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|110388308|gb|EC953043.1|EC953043
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|110376459|gb|EC941524.1|EC941524
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTAGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|349829387|gb|FQ419919.1|FQ419919
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|351031379|gb|FQ445404.1|FQ445404
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|229418699|gb|GO652936.1|GO652936
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|71870783|gb|DT019838.1|DT019838
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|110363008|gb|EC926573.1|EC926573
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTAGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|349813488|gb|FQ413722.1|FQ413722
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|110361951|gb|EC925457.1|EC925457
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTAGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|30252871|gb|CB970422.1|CB970422
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAG
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAG
EST: gi|71883070|gb|DT032125.1|DT032125
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|28965323|gb|CB344356.1|CB344356
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|18458226|gb|BM436504.1|BM436504
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|32244911|gb|CD710730.1|CD710730
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTTTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|351048322|gb|FQ449414.1|FQ449414
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|30252957|gb|CB970508.1|CB970508
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|110426800|gb|EC993222.1|EC993222
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|30131378|gb|CB916717.1|CB916717
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|34542626|gb|CF510858.1|CF510858
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|352794370|gb|FQ481601.1|FQ481601
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|33401641|gb|CF207268.1|CF207268
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTAGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|110389432|gb|EC954269.1|EC954269
EST:     TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTAGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
EST: gi|351049192|gb|FQ449914.1|FQ449914
EST:     TCCTCTCAGATCTCTNTTGGGTGGGAATGTTTTATCACCTCTACAATCAG                         CTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC
genomic: TCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatt ... gaattctcagCTAGCTACCAACACCCTGGAGAGAGTGGCACCTCTCACACATGCAGTTGGC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGAAGCATGGCTTTAATGATGCAATTGCTAAAGTGGGTCTGACCAAGTTCCTCTCAGATCTCTTTTGGGTGGGAATGTTTTATCACCTCTACAATCAGgtacattatttttggggagcttcagttgtaaactaacgtcttgtggattataaagttatcactatcattctttttcctctcaatgttatttaacaatcaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggggag
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