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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcacttcgatttcttgttagcctttttgcgttttgcaaatgtctctacctgtttggctgtagaggaaatgaaataaaaactcggagttctgttata...

Basic information

species Vitis vinifera
transcript Vv01s0010g03370.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03370.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA18G01110.1 (Glycine max), 5'ss of exon 2
GTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcacttcgatttcttgttagc-----------ctttttgcgttttgca-aatgtctctacctgtttggctgtagaggaaatgaaataaaaactcggagtt---ctgttata------------------------------------------------------
||||||||||||||||| || |||||||||||||||||||||  |    |     | |||             |||  | | | ||    | | ||| |   | |||  | ||        |  | |  ||  |  | |||   || ||||                                                       
GTGAAGTACTCCAGAGAACCCGACAATCCCACCAAGTgtaagttccgttaccctctcttaatttgacaaaattcttaatacatgttatttattttctgtgtttatttatccgtcatttttcttcactcgaacgtaagtgtttgtcttttatgtgttgattttagcttaatttaatctaatacactgattgtgccatgttattgcag

upper sequence: Vv01s0010g03370.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA11G37160.1 (Glycine max), 5'ss of exon 2
GTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcacttcgatttcttgttagcctttttgcgttttgcaaatgtctctacctgtttggctgtagaggaaatgaaataaaaactcggagttctgttata--------------------------------------------------------
||||||||||||||||| || |||||||||||||||||||||  ||         |  ||   |   |     ||   ||| | |     |  | || | | |   |   |  ||  |      |  || | || ||                                                        
GTGAAGTACTCCAGAGAACCCGACAATCCCACCAAGTgtaagtcctctttcgctctcataatttgaataaacctt---aatatatacgatttctgggtttttgcacagtggttatttatgtatcgttttgttttttaagtgttgattttaggttaatttaaactaatacgccgattgtgtcacgttattgcag
















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|71873945|gb|DT023000.1|DT023000
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110723473|gb|EE100823.1|EE100823
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|33405080|gb|CF210707.1|CF210707
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|352785916|gb|FQ475919.1|FQ475919
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110389474|gb|EC954312.1|EC954312
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110410303|gb|EC975983.1|EC975983
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110410646|gb|EC976337.1|EC976337
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|30135012|gb|CB920350.1|CB920350
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110728251|gb|EE103666.1|EE103666
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|30132956|gb|CB918295.1|CB918295
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110379867|gb|EC945089.1|EC945089
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110395175|gb|EC960782.1|EC960782
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110408348|gb|EC973983.1|EC973983
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110398542|gb|EC964978.1|EC964978
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|32265198|gb|CD716787.1|CD716787
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|32269193|gb|CD718352.1|CD718352
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|71873814|gb|DT022869.1|DT022869
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|71886778|gb|DT035833.1|DT035833
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|37188749|gb|CF608098.1|CF608098
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110701444|gb|EE079024.1|EE079024
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|33409449|gb|CF215076.1|CF215076
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|32270225|gb|CD719384.1|CD719384
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|110699698|gb|EE076922.1|EE076922
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|33409120|gb|CF214747.1|CF214747
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG
EST: gi|71885231|gb|DT034286.1|DT034286
EST:     CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGT                         CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG
genomic: CCGCCATGGTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcactt ... ggtgccacagCTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAAGTACTCCAGAGAGCCAGACAATCCCACCAAGTgtaagcacttcgatttcttgttagcctttttgcgttttgcaaatgtctctacctgtttggctgtagaggaaatgaaataaaaactcggagttctgttata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaa