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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGGGCGGGGGCTCGGATCCTCTTCTACCCGACTCTTCTGTATAATGTGTTTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgttttctctgatttttgtgcttattttaatgatttttgttttttcatgatagatttcatgtttatcctatgtttgattgctgataggaggtgggt...

Basic information

species Vitis vinifera
transcript Vv11s0016g02890.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g02890.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA08G03600.1 (Glycine max), 5'ss of exon 2
CGGGGCGGGGGCTCGGATCCTCTTCTACCCGACTCTTCTGTATAATGTGTTTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgttttctctgatttttgtgcttattttaatg-------atttttgttt--tttcatgatagatt--tcatgtttatcctatgtttgattgctg-ataggaggtgggt-----------------------------------------------
 || || || ||||||||||| |||||||| || ||  ||||||||||| |||| ||||||||| | || |||||||| ||||||||| || ||||  |||||||| | |||||   | |    ||   |   |         | |  |  ||  |||| |  | ||||  || || || |  | | ||  |||| || |||   | | ||                                                
TGGAGCTGGTGCTCGGATCCTGTTCTACCCCACACTCTTGTATAATGTGCTTCGTAACAAGATTGAAGCTGAGTTCAGGTGGTGGGATCAAATTGACGAGgttttgctctctctctctctctctctctctcacacacacacacaatcctacttgatttcgttcttgattaatcgtggttttgttgttttgaattgttgtataattgttaggcgagaatcgtaattggggttttattgaaattttgtttgttatttatag

upper sequence: Vv11s0016g02890.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA05G36020.1 (Glycine max), 5'ss of exon 1
CGGGGCGGGGGCTCGGATCCTCTTCTACCCGACTCTTCTGTATAATGTGTTTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgttttctctgatttttgtgcttattttaatgatttttgttttttcatgatagatttcatgttt--atcctatgtttgatt-gctgataggaggtgggt------------------------------------------------------------
 || || || ||||||||||| ||||| || || ||  ||||||||||| |||| ||||||||| | || |||||||| ||||||||| || ||||  |||||||  | |||||   | |     |  | || ||  |  || ||  || ||  | | |||  |||||  |     ||| | |   | |||| |||  || |                                                             
TGGAGCAGGTGCTCGGATCCTGTTCTATCCCACACTCTTGTATAATGTGCTTCGTAACAAGATTGAAGCTGAGTTCAGGTGGTGGGATCAAATTGACGAGgttttactctctctctctctctcaatcctattcattttcgttcttgattaatcgtggttttgttgttttgaattgttgtataacccgttgat-ggatttgtgccttgtttgctgatactcgtaattgaggttttactgaaattttgtttgttgtcattgctag
















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|156735982|gb|EV240103.1|EV240103
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351032518|gb|FQ458883.1|FQ458883
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|161719492|gb|FC067690.1|FC067690
EST:     TTCGGAACAAGATTCAGGCGGAGTTCTGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|352791385|gb|FQ480964.1|FQ480964
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCCTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351034943|gb|FQ458300.1|FQ458300
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCTTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|349809160|gb|FQ398901.1|FQ398901
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|352791479|gb|FQ481058.1|FQ481058
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGGAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351039844|gb|FQ464882.1|FQ464882
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|71865054|gb|DT014109.1|DT014109
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|110379170|gb|EC944349.1|EC944349
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|71876810|gb|DT025865.1|DT025865
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351044066|gb|FQ452739.1|FQ452739
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|110388085|gb|EC952801.1|EC952801
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351037982|gb|FQ465220.1|FQ465220
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGGTGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351052950|gb|FQ453937.1|FQ453937
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|349819705|gb|FQ402642.1|FQ402642
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351037230|gb|FQ457063.1|FQ457063
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCTTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351038655|gb|FQ464521.1|FQ464521
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351056738|gb|FQ443365.1|FQ443365
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|71856681|gb|DT005736.1|DT005736
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCGAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351041750|gb|FQ455960.1|FQ455960
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351041720|gb|FQ455930.1|FQ455930
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|30304523|gb|CB981317.1|CB981317
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351038816|gb|FQ464682.1|FQ464682
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|110729962|gb|EE106494.1|EE106494
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|349818207|gb|FQ408982.1|FQ408982
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|349823003|gb|FQ399982.1|FQ399982
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|351037592|gb|FQ462575.1|FQ462575
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|349822165|gb|FQ412429.1|FQ412429
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
EST: gi|110689256|gb|EE065319.1|EE065319
EST:     TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAG                         TTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG
genomic: TTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgtttt ... tatgtttcagTTCCTTCTGCTTGGTGCGGTTCCATTTCCCAAGGATGTCCCACGGCTGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGGGGCGGGGGCTCGGATCCTCTTCTACCCGACTCTTCTGTATAATGTGTTTCGGAACAAGATTCAGGCGGAGTTCAGATGGTGGGATGAAGTTGATCAGgttttgttttctctgatttttgtgcttattttaatgatttttgttttttcatgatagatttcatgtttatcctatgtttgattgctgataggaggtgggt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG