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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattctatacaattcccccttgaattactgtcacaagaagtttgtctcgactcttaacactacatcattttgaatggcag

Basic information

species Vitis vinifera
transcript Vv07s0005g02820.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os05g24550.4 (Oryza sativa), 5'ss of exon 11
ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct-------atacaattccccc--ttgaattactgtcacaagaagtttgtctcga-ctcttaacactacatcattttgaatggcag---
 | |||||||||||||||||||||   ||||||||||||||    |       ||| || | |      |||| |  || || ||   || | | | || || |||| | |   |  |     ||    |   
CTGCTTGCAAACCAGTGGAACAGAGGATGGGGCGATgtaagtccttggcaaatatataagttcaataagtgaaatgttg-cataatttgtattttttgagctattaataatgtttggtcggtgatactggtag
















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|22010916|gb|BQ795950.1|BQ795950
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|34545710|gb|CF513942.1|CF513942
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110716152|gb|EE090883.1|EE090883
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|161711642|gb|FC061266.1|FC061266
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|22012339|gb|BQ797373.1|BQ797373
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110717706|gb|EE093795.1|EE093795
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|30302325|gb|CB979119.1|CB979119
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110375663|gb|EC940672.1|EC940672
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|352764436|gb|FQ472793.1|FQ472793
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|26262146|gb|CA813209.1|CA813209
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GGCGGTTACTTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGA
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTT-CATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGA
EST: gi|110703469|gb|EE080340.1|EE080340
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110379925|gb|EC945151.1|EC945151
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110731310|gb|EE105611.1|EE105611
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|351041020|gb|FQ443796.1|FQ443796
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110420331|gb|EC986603.1|EC986603
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110406529|gb|EC972106.1|EC972106
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110396856|gb|EC962558.1|EC962558
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110406274|gb|EC971841.1|EC971841
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|351027477|gb|FQ444726.1|FQ444726
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110426643|gb|EC993059.1|EC993059
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|110360706|gb|EC924023.1|EC924023
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
EST: gi|34545624|gb|CF513856.1|CF513856
EST:     ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGAT                         GACGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG
genomic: ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattct ... tgaatggcagGATGGTTACTTCATGATCCGAAGAGGAGTAAATGAGTGTGGCATCGAAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTCTTGCAAACCAGTGGAACAGAAACTGGGGCGATgtaagattctatacaattcccccttgaattactgtcacaagaagtttgtctcgactcttaacactacatcattttgaatggcag

- - - - - -  AGTGGA