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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatgttcacttgctcttgttcattctttcgtgtgctgcaacacttgtgctttcttgtgcagaattaggttttaattgttggataatgtgcttgcag

Basic information

species Vitis vinifera
transcript Vv01s0026g00340.t01
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: LOC_Os08g19850.1 (Oryza sativa), 5'ss of exon 16
ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatgttcacttgctcttgttcattctttcgtgtgctgcaacacttgtgctttcttgtgcagaattaggttttaattgttggataatgtgcttgcag
|| |||||||| ||||||||||| ||||| ||||| || || ||| |||| | ||||||  | |  |||||||| |||||||||||  ||||||||    || || | |  |  ||     || ||   |||    ||  |     | ||  || |  | | ||   ||    ||   |                
ATCAATGAAGGTGATGGTGCCTTCTATGGTCCAAAAATTGATATTGGTGTGTTTGATGCCCTCAAGAGGAAATTTCAGTGTGCAACTCTACAGgtt----atattgaatgtcattt---tgtttttaattgtag-acagaatagaaggttatttatctaaacttcatttcctgttacag----------------

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: GLYMA01G03930.1 (Glycine max), 5'ss of exon 15
ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatgttcacttgctcttgttcattctttcgtgtgctgcaacacttgtgctttcttgtgcagaattaggttttaattgttggataatgtgcttgcag
 | ||||||||||||||||| || || ||||||||||||||||| ||||| ||||||||||| ||||||||||||||||||||||| || |||||||      ||||  ||   ||      || |||   || | ||    || ||  |   | | |||  | | | ||  ||   ||  |  | |||||||||
TTGAATGAAGGGGATGGTGCATTCTACGGACCAAAGATAGACATCAGTGTATCTGATGCATTGAGTAGGAAATTCCAGTGTGCAACTTTGCAGgtttgcacctttcagctggattt------tcattcacatgattcag---ttttgaataacttttcagc-tgatggttggatgaatg--tggt-tgcttgcag

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 15
ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatgttcacttgctcttg--ttcattctttcgtgtgctgcaacacttgtgctttcttgtgcagaattaggttttaattgttggataatgtgcttgcag
 | ||||||||||||||||| || |||||||||||||||||||| ||||| |||||||||||  |||||||||||||||||||||| || |||||||    ||||||  |    |||  |||| |   |   ||  || |  |||| |    |  || |  | || |   | |  |||   |               
TTGAATGAAGGGGATGGTGCATTCTATGGACCAAAGATAGACATCAGTGTATCTGATGCATTGGGTAGGAAATTCCAGTGTGCAACTTTGCAGgtttgcactgttcagctagatttgcattcacttgattcagttttgaataacttttcagctgatg-gttggatgaa--tctggttgcctgcag------------

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: AT5G26830.1 (Arabidopsis thaliana), 5'ss of exon 16
ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatgttcacttgctcttgttcattctttcgtgtgctgcaacacttgtgctttcttgtgcagaattaggttttaattgttggataatgtgcttgcag
 | || ||||| |||||||| |||||||| |||||||||||||| |  |||||||||||| | | |||||||||||||||||| || ||||||||| ||  |    | ||  | ||  |  |||||   | |||     | ||||   ||    |||||| | | | |||||  | |    |    |     |||
TTGAACGAAGGAGATGGTGCATTTTATGGTCCAAAGATAGACATCACAGTTTCTGATGCAATGAATAGGAAATTCCAGTGTGCTACTTTACAGgtt-atactcccaaattctttttagtttttcttgtctatgc-atttctcttgctgttatcagtgcaggagttgattttatgtttcttgtggcctcaaatcag

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: AT1G17960.1 (Arabidopsis thaliana), 5'ss of exon 8
ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatgttcacttgctcttgttcattctttcgtgtgctgcaacacttgtgctttcttgtgcagaattaggttttaattgttggataatgtgcttgcag
||||| ||||| || ||||| |||||||| |||||||||||||| |  || ||||||||    | |||||||||||||||||| ||  ||||||||    | | || |   ||||| ||  || |||| | || |       |||| |||  |     | ||| || |||| ||  ||   |  |  |    |||
ATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAGgtt----aggctcccaaactctttttagttttttcctctgtttt-----ttgttcttgatctcttacaataagattttgatccttatttgcttcgtac-cag

upper sequence: Vv01s0026g00340.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: PP1S400_36V6.1 (Physcomitrella patens), 5'ss of exon 16
ATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatgttcacttgctcttgttcattctttcgtgtgctgcaacacttgtgctttcttgtgcagaattaggttttaattgttg-gataatgtgcttgcag
|| ||||||| ||||||||||||||||||||||||||| ||||| |  |||| ||||||||| |  || || || |||||||| ||| | |||||   | | | | | ||| |    || |||   |  | |  ||  |   | ||    ||||    |   |||| ||| |   |||   |    ||  || |  
ATTAATGAAGCGGATGGTGCCTTTTATGGACCAAAGATTGACATCACCGTTTTTGATGCATTGAAGAGAAAGTTTCAGTGTGCTACAATCCAGgtgggt-aggctaaattgttgc-atttattgaataatctcatgttattatggt-tgatcttagaaattgttagatttcatcagttacaactccgtcatttcta

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|30325956|gb|CD009218.1|CD009218
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAGTTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCCCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|30325105|gb|CD008367.1|CD008367
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAGTTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCCCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|32268540|gb|CD717699.1|CD717699
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAGTTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCCCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|30323442|gb|CD006704.1|CD006704
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAGTTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCCCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|32249386|gb|CD715205.1|CD715205
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAGTTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCCCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|22011637|gb|BQ796671.1|BQ796671
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAGTTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCCCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|110360907|gb|EC924350.1|EC924350
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCTTGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|22011184|gb|BQ796218.1|BQ796218
EST:     TGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT
EST: gi|156735898|gb|EV240019.1|EV240019
EST:     TAGTGTTTCTGATGCATTAAGTAGGAAGTTCCCGTGTGCAAACATTACAG                         CTGGACTTTTCAGCTT
genomic: TAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAA-CATTACAGgtttatcatg ... gtgcttgcagCTGGACTTT-CAGCTT
EST: gi|30327091|gb|CD010353.1|CD010353
EST:     TTAGTGTTTCTGATGCATTAAGTAGGAAGTTCCAGTGTGCAACATTACAG                         CTGGACTTTCAGCTTCCTTCCCGTTTTGATTTGTCTTACTCAGCTGAGGAT
genomic: TTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAGgtttatcatg ... gtgcttgcagCTGGACTTTCAGCTTCCTTCTCGTTTTGATTTGTCTTACTCAGCTGAGGAT