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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcctttatttatttgcctttctgatttgatgtgcacaatcttattccatgtggcagtgtctaattgagaaatttttttag

Basic information

species Vitis vinifera
transcript Vv18s0001g05550.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g05550.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G016296_T06 (Zea mays), 5'ss of exon 5
TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcctttatttatttgcctttctgatttgatgtgcacaatc--ttattccatgtggcagtgtctaattgagaaatttttttag-------------
 |  ||||| ||| | | |||      |   |||||| ||| ||| |||||||||||||||||  |||||||||||||| | ||  ||  |||  | || |     ||  | |  |||   ||||    |||  |     ||  ||| | |||| |                  
CCGCAAAGGAAGGGTTAAAGAGGGGGTTGAGAAATCACAAGACAGATCAAGAAGCCGCAGTCCAAGGCCAAGgtgaaga-ctttagttccttttacattatctccagaattactaaatgtgttatatggtgtc-ctccccctgcttgggtaattatccctcccttcaggcctcc
















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|351026523|gb|FQ428535.1|FQ428535
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|351015878|gb|FQ431833.1|FQ431833
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|32265216|gb|CD716805.1|CD716805
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|351056154|gb|FQ453616.1|FQ453616
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110715132|gb|EE092829.1|EE092829
EST:     TCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: TCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110409912|gb|EC975586.1|EC975586
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCGAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|18459646|gb|BM437924.1|BM437924
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|351027210|gb|FQ444459.1|FQ444459
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110413030|gb|EC978799.1|EC978799
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCGAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|351013557|gb|FQ425588.1|FQ425588
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110407464|gb|EC973066.1|EC973066
EST:     CTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCGAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: CTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|37184355|gb|CF603709.1|CF603709
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|37186472|gb|CF605825.1|CF605825
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|351026982|gb|FQ436635.1|FQ436635
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110374026|gb|EC938504.1|EC938504
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|349825188|gb|FQ415735.1|FQ415735
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|161720292|gb|FC070553.1|FC070553
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCGAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|30321299|gb|CD004561.1|CD004561
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|351015736|gb|FQ431691.1|FQ431691
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110733043|gb|EE108857.1|EE108857
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110381112|gb|EC946429.1|EC946429
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCGAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|349817238|gb|FQ405242.1|FQ405242
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|351039277|gb|FQ461144.1|FQ461144
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|294964425|gb|GW838228.1|GW838228
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCA
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCA
EST: gi|110408451|gb|EC974087.1|EC974087
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|349809657|gb|FQ414548.1|FQ414548
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110405318|gb|EC970858.1|EC970858
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
EST: gi|110430375|gb|EC996928.1|EC996928
EST:     ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAG                         GCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG
genomic: ACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcc ... atttttttagGCATCGGGATGAATACAGGGACAGGGATTACAGGAAGAGAAGTCGCAGCAG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCATAAAGGGAGGATAATAGAAACATCTTCAAAATCAAAAGGCAGGTCAAGAAGCCGCAGTCCTCGGCCAAGgtgaagatcctttatttatttgcctttctgatttgatgtgcacaatcttattccatgtggcagtgtctaattgagaaatttttttag

- - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC