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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaactctaattcataccatggctatttctacatatgtgtatggacttgatggctaaatgatatttgttctttttttgttttttcattttactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAAAGTGAACTGACTCCTAGTAATGCCAATATATTGGATGGCCGTTATGCAG

Basic information

species Vitis vinifera
transcript Vv14s0066g01410.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0066g01410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G015967_T01 (Zea mays), 3'ss of exon 6
gtaagaactctaattcataccatggctatttctacatatgtgtatggacttgatggctaaatgatatttgttctttttttgttttttcattttactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAAAGTGAACTGACTCCTAGTAATGCCAATATATTGGATGGCCGTTATGCAG
||||||     |    | |        || ||  ||||||   | |  ||  || | ||  | || | |  |    |    |   |||| |  |     ||||||||||| || ||||| || || |||||  ||||||||||  ||||||| ||||| || || || || ||||||||||||||||| || || || ||||
gtaagagagacatgcaagattgca--catatcagcatatgcagacgatctgcatcg-tatctaatgtattctaacctgagataacttcactgcatg--acagGAATTTGATGACAATTCTGCTTCTAGCCAAGTATTTTGGCTCTTGAAAGAGAGTGAGCTAACACCAAGCAATGCCAATATATTGGACGGGCGGTACGCAG

upper sequence: Vv14s0066g01410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G01260.1 (Glycine max), 3'ss of exon 6
gtaagaactcta-attcataccatggctatt-tctacatatgtgtatggacttgatggctaaatgatatttgttctttttttgttttttcattttactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAAAGTGAACTGACTCCTAGTAATGCCAATATATTGGATGGCCGTTATGCAG
|| || |   |  |||| |  ||| ||| || | ||   |||   ||    ||  |  ||   |  |||||  || |||| |||| ||| | |         |||||||||| || || || || || |||||||||||||||||| ||||||||||||| || ||||||||||||||||||||||||||||| || ||||| |
gtgaggagaatctattctttgcattgctgttctttaagcatgataatcttttttttttcttgcttttatttactccttttatgttgtttgaat---------agGAATTTGAGGACAACTCTGCCTCTAGCCAGATATTTTGGCTATTGAAAGAAAGTGAGCTAACTCCTAGTAATGCCAATATATTGGATGGTCGATATGCCG

upper sequence: Vv14s0066g01410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G23850.1 (Glycine max), 3'ss of exon 6
--gtaagaactctaattcataccatggctatttctacatatgtgtatggacttgatggctaaatgatatttgttctttttttgttttttcattttactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAAAGTGAACTGACTCCTAGTAATGCCAATATATTGGATGGCCGTTATGCAG
  |     | |||| |   |  ||| ||| ||  |  |    ||       ||  |  ||   |  |||||  || |||| |||| ||| | |         |||||||||| || || || || || |||||||||||||||||| ||||||||||||| || ||||| ||||||||||||||||||||||| || |||||||
gtgaggagaatctattctttgacattgctgttctt-taagcatgctaatcttttttttcttgcttctatttactccttttatgttgtttgaat---------agGAATTTGAGGACAACTCTGCCTCCAGCCAGATATTTTGGCTATTGAAAGAAAGTGAGCTAACTCCCAGTAATGCCAATATATTGGATGGTCGATATGCAG

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|110360444|gb|EC923550.1|EC923550
EST:     AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGAT                         GAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA
genomic: AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGATgtaagaactc ... tactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA
EST: gi|110363828|gb|EC927448.1|EC927448
EST:     AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGAT                         GAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA
genomic: AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGATgtaagaactc ... tactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA
EST: gi|71871956|gb|DT021011.1|DT021011
EST:     AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGAT                         GAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA
genomic: AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGATgtaagaactc ... tactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA
EST: gi|30321055|gb|CD004317.1|CD004317
EST:     AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGAT                         GAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA
genomic: AAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGATgtaagaactc ... tactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgatggctaaatgatatttgttctttttttgttttttcattttactctgcagGAATTTGACGATAATTCCGCGTCAAGCCAGATATTTTGGCTACTGAAAGAAAGTGAACTGACTCCTAGTAATGCCAATATATTGGATGGCCGTTATGCAG
       ggctaaa  putative branch site (score: 3)
                 tatttgttcttttttt  putative PPT
          taaatgatatttgttc  TA-rich tract