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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctgctgccttcttttaatattttgttttctatcatacaaacatatgtttaagtttaactaattcgctttgcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATTTTGGATGCTAGATCTTGCAAACAATACGGTGCAG

Basic information

species Vitis vinifera
transcript Vv01s0026g01960.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g58080.1 (Oryza sativa), 3'ss of exon 4
---gtctctgctgccttcttttaatattttgttttctatcatacaaacatatgtttaagtttaactaattcgctttgcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATTTTGGATGCTAGATCTTGCAAACAATACGGTGCAG
    ||| || | | |    ||  | |  |  |||   ||| |  ||  | ||       | || | |   |   ||  | | ||| | || ||||||| |  ||    | |||||||||||||| || ||||| || |||||| | ||||| ||||||||||| || || 
gtaatctttgatacttctacttcctttgatagttttcttcacatcaa-gtgtgccgccactaaaatgacgagtactgtttgttcagTACATATAAAGGTTCAAGATTTCGAGCAGCTATTATTTTCGTTCTTGGGTTCTGGATGTTGGATCTCGCAAACAATACAGTTCAA
















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|352778247|gb|FQ465557.1|FQ465557
EST:     TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAG                         AAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
genomic: TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAGgtctctgctg ... gcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
EST: gi|110698594|gb|EE076268.1|EE076268
EST:     TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAG                         AAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
genomic: TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAGgtctctgctg ... gcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
EST: gi|352776811|gb|FQ472698.1|FQ472698
EST:     TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAG                         AAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
genomic: TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAGgtctctgctg ... gcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
EST: gi|110723267|gb|EE100385.1|EE100385
EST:     TTTTCTGCAGACATTGGATATTTACTAGGAGATACCAATATGGATTGCAA                         AAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
genomic: TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAGgtctctgctg ... gcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATT
EST: gi|352764959|gb|FQ473607.1|FQ473607
EST:     TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAG                         AAAATTTAAAGGTACTCCAACATGGGGAGCTATTATTTTTGTCC
genomic: TTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAGgtctctgctg ... gcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctatcatacaaacatatgtttaagtttaactaattcgctttgcatatgcagAAAATTTAAAGGTACTCGAACATGGGCAGCTATTATTTTTGTCCTTGGATTTTGGATGCTAGATCTTGCAAACAATACGGTGCAG
                               aactaat  putative branch site (score: 2)
                 atatgtttaagtttaa  TA-rich tract