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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagctgaaatctattgctattatagaatactcacaggttaaatttaatcgcccacttgtgtacttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATGTATCATAAGGATCCTGAGACTGATTCTGCTCGAATTGTTGGGTTTGAGG

Basic information

species Vitis vinifera
transcript Vv09s0002g02140.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G20640.1 (Glycine max), 3'ss of exon 4
--gtgagt-agctgaaatctattgcta----ttatagaatactcacag--gttaaatttaatcgcccacttg-tgtacttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATGTATCATAAGGATCCTGAGACTGATTCTGCTCGAATTGTTGGGTTTGAGG
     | | ||||  ||| |  |  ||    ||  || ||  |    |    |  || |  |  |   |||| | |  |  | ||||| || ||||||||||||||||| |||||||||||||| ||||  ||||||||||| ||||||||||| |||| ||||||||| |||||||| |||||||
gtacaactcagctagaattttcttataaaatttcaagtatcatttttgccactccatattgttacaatcttgctattttcctacagAGCAAGGAGGAGAAGTATTTTATTAATAACCACTTGAGTTTCAGAGTCATGTATCACAAGGATCCTGAAACTGGTTCTGCTCGTATTGTTGGATTTGAGG

upper sequence: Vv09s0002g02140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 4
gtgagtagctgaaatctattgctattatagaatactcacaggttaaattta------------atcgcccacttg-tgtacttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATGTATCATAAGGATCCTGAGACTGATTCTGCTCGAATTGTTGGGTTTGAGG
  |  || || |  |  | |  | ||||| |||  |||   || |  |||              |  |  | ||  | |  |  | ||||| || |||||||| |||||||| |||||||||||||| ||||  ||||||||||| ||||||||||| |||| ||||||||| |||||||| |||||||
--gtataactcagcttgaattttcttataaaat-ttcaagcgtcatttttgccactccatattgttacaaatttactattttcctacagAGCAAGGAGGAGAAATATTTTATTAATAACCACTTGAGTTTCAGAGTCATGTATCACAAGGATCCTGAAACTGGTTCTGCTCGTATTGTTGGATTTGAGG

upper sequence: Vv09s0002g02140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G13772.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagtagctgaaatctattgctattatagaatactcacaggttaaatttaatcgcccacttg----tgtacttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATGTATCATAAGGATCCTGAGACTGATTCTGCTCGAATTGTTGGGTTTGAGG
||  ||  || || |||| |||| | |     | ||   |  ||  ||   | |  | | | |    |   |||| | |||| ||||||||||| || |||||  |||| ||||||||||||   |||||||| || |  || |  ||| |||||||||||||||||||||| |||||||
gtatgtctctaaactctagtgct-tcagtctttgctattaccttttatcataccaactaatagttgcttggctttcgtagAGCAAAGAGGAGAAATACTTTATACATAATCACTTGAGCTTCCGAGTCATGTACCACAGAGACCAAGAGTCTGATTCTGCTCGAATTGTTGGATTTGAGG

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|161705906|gb|FC054812.1|FC054812
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
EST: gi|110691298|gb|EE069240.1|EE069240
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGCAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
EST: gi|71862773|gb|DT011828.1|DT011828
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
EST: gi|351033128|gb|FQ446481.1|FQ446481
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
EST: gi|71865270|gb|DT014325.1|DT014325
EST:     AAACATATGAACATGGTTTCCGAGTAGGGGTTAAAGGAAATTATGCTGGG                         AGTAAAGAGGAGAA
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAA
EST: gi|351030399|gb|FQ432337.1|FQ432337
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
EST: gi|349833072|gb|FQ416450.1|FQ416450
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
EST: gi|34546863|gb|CF515095.1|CF515095
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGCAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
EST: gi|161713929|gb|FC062883.1|FC062883
EST:     AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGG                         AGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG
genomic: AAACATATGAACATGGTTTCCGAGTAGGGTTTAAAGGAAATTATGCTGGGgtgagtagct ... acttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattatagaatactcacaggttaaatttaatcgcccacttgtgtacttttgcagAGTAAAGAGGAGAAGTATTTTATCAATAACCACTTGAGCTTCAAGGTCATGTATCATAAGGATCCTGAGACTGATTCTGCTCGAATTGTTGGGTTTGAGG
                                            tactttt  CT-rich tract
                  aggttaaatttaat  TA-rich tract