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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatattcttcctcctaacacaatgtgaatgttcgttgtacctgaattataaattctatgggccttctcttgatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATGGTTCAGTGACACCGTCACTGCTGTGGTTGTGCCTCCATACATCGATAGT

Basic information

species Vitis vinifera
transcript Vv06s0009g03740.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g03740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g39300.2 (Oryza sativa), 3'ss of exon 5
--------------gtgaatattcttcctcctaacacaatgtgaatgttcgttgtacctgaattataaattctatgggccttctcttgatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATGGTTCAGTGACACCGTCACTGCTGTGGTTGTGCCTCCATACATCGATAGT
                ||| ||| |  |   ||  ||||  |    | ||    |   ||||    | |||||   ||| |  | |  ||| |  ||||| || |||||||| ||||| || ||||| ||||| || | |||||| |||||||| ||||||||||| || || || ||||| || |||||||| || 
gtcggtcaccgaggaagaacattttgacgtttagaacaagatt--cggtcaaact-tttgaacgtgagattctgacggcgtgatgtgcata-tatagGCTGGCCGTGGAGGCGTGGGGGCTCAAGAACTGCACGCAGAAGGAGGAGTGGTTCAGCGACACCGTCACCGCCGTCGTCGTGCCGCCGTACATCGACAGC

upper sequence: Vv06s0009g03740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G41460.1 (Glycine max), 3'ss of exon 4
-----gtgaata-----ttcttcctcctaacacaa--tgtgaatgttcgttgtacct---gaattataaattctatgggccttctct-tgatac-tgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATGGTTCAGTGACACCGTCACTGCTGTGGTTGTGCCTCCATACATCGATAGT
      || | |     |||||     | | |  |  | ||| | || ||| ||  |     |  || |||   || ||   ||  | || ||  ||||| |||||||| |||||||||||  |||||||||||||||||| ||| || |||| ||||||||| || ||||||||  |||| ||| | ||||| ||||||
tacaaatggacaaaggtttcttaaagttgataatagctttgacttttggttatatgtttaagacaatgaatctgataggttctcaatatgctaaatgcagACTTGCTGTAGAGGCATGGGGTTTGAAGAATTGCACCCAAAAGGAAGAGTGGTACAGTGACACTGTGACTGCTGTTCTTGTTCCTGCTTACATTGATAGT

upper sequence: Vv06s0009g03740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G14740.1 (Glycine max), 3'ss of exon 3
---------gtgaatattcttcctcctaacacaa--tgtgaatgttcgttgtacctga----attataaattctatgggccttctct-tgatac-tgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATGGTTCAGTGACACCGTCACTGCTGTGGTTGTGCCTCCATACATCGATAGT
          | |   |||||     | | |  |  | ||| | || ||| ||  | |    |  || |||   || |||| ||  | || ||  ||||| |||||||| |||||||||||  |||||||||||||||||| ||| || |||| ||||||||| || ||||||||  |||| ||| | ||||| ||||||
acaaatggactaaggtttcttaaagttgataatagttttgacttttggttatatgttataagacaatgaatctgataggccctcaatatgctaaatgcagACTTGCTGTAGAGGCATGGGGTTTGAAGAATTGCACCCAAAAGGAAGAGTGGTACAGTGACACTGTGACTGCTGTTCTTGTTCCTGCTTACATTGATAGT

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|30325248|gb|CD008510.1|CD008510
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|33111205|gb|CF074549.1|CF074549
EST:     GGACTTGACAATGTGATTGANAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|110731104|gb|EE108948.1|EE108948
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAAGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|352790608|gb|FQ475366.1|FQ475366
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|32245128|gb|CD710947.1|CD710947
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAA-GCAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|110390894|gb|EC955836.1|EC955836
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTATGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAGTG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|110389401|gb|EC954235.1|EC954235
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|77578060|gb|DV217793.1|DV217793
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTATGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAGTG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|110377350|gb|EC942413.1|EC942413
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|110365216|gb|EC927849.1|EC927849
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTATGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAGTG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|225387949|gb|GO307580.1|GO307580
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|110391336|gb|EC956302.1|EC956302
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|156737099|gb|EV241220.1|EV241220
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|22015487|gb|BQ800521.1|BQ800521
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTATGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAGTG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|110372272|gb|EC936425.1|EC936425
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTATGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAGTG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|156737102|gb|EV241223.1|EV241223
EST:     GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GGACTTGACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|29785242|gb|CB342053.2|CB342053
EST:     TGTGATTGAAAGGCATAGCCGTTTGGGCAAAG-AACAAG                         NTTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: TGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
EST: gi|28963093|gb|CB342126.1|CB342126
EST:     GACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAG                         GCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG
genomic: GACAATGTGATTGAAAGGCATAGCCGTTTGGGCAAAGCAACAAGgtgaatattc ... gatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgttcgttgtacctgaattataaattctatgggccttctcttgatactgcagGCTTGCTGTGGAGGCATGGGGCCTGAAGAATTGCACCCAAAGGGAGGAATGGTTCAGTGACACCGTCACTGCTGTGGTTGTGCCTCCATACATCGATAGT
                                         tcttgat  putative branch site (score: 4)
                                    ccttctcttg  CT-rich tract
                tgaattataaattcta  TA-rich tract