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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatttcagtaccttagtttcttttggggatatgaacgtcatgtgtcaattttcttgtggtaggttatgggatttgcctgacttttggggattggcagGGTGGTGATATTGAGAAAGCAACTGATTGGATATTTAGCAATCCTGATGCTGCTAGTTCATCAGATATGGATGCTACAACAAGCAGTACTCCTACTGCTG

Basic information

species Vitis vinifera
transcript Vv19s0014g03920.t01
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA06G39770.1 (Glycine max), 3'ss of exon 17
gtaaaatttcagtaccttagtttcttttggggatatgaacgtcatgtgtcaattttcttgtggtaggttatgggatttgcctg-acttttggggattg-------gcagGGTGGTGATATTGAGAAAGCAACTGATTGGATATTTAGCAATCCTGATGCTGCTAGTTCATCAGATATGGATGCTAC---AACAAGCAGTACTCCTACTGCTG
    ||||||  |   |   || |  |      | |||  ||    |    |||||  |    |  |  |     |||| ||| ||   |||  ||         | |||||||||| |||||||||||||| ||||||||||||| ||||||||||||    |||   ||   |||||||||| |   | ||| |  |    | ||| |  
--gtaatttctttttttattttcccctctcccttgtgactgtaggattaggattttgataaattgtgccacaatgtttgactgtacaaatggaaatcactgttctgtagGGTGGTGACATTGAGAAAGCAACAGATTGGATATTTAACAATCCTGATGC-ATCAGTC--TCCAGTATGGATGCTTCCCCATCAAACGCTGAATCCACTACCA

upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA12G22240.1 (Glycine max), 3'ss of exon 17
gtaaaat----ttcagtaccttagtttcttttggggat-atgaacgtcatgtgtcaattttcttgtggtaggttatgggatttgcctg-acttttggggattg-------gcagGGTGGTGATATTGAGAAAGCAACTGATTGGATATTTAGCAATCCTGATGCTGCTAGTTCATCAGATATGGATGCTA---CAACAAGCAGTACTCCTACTGCTG
||||  |    || | |   ||| ||||   |     |  |||  ||    |     ||||  |    |  |        |||| ||  ||   |||  ||         | ||| |||||| |||||||||||||| ||||||||||||| |||||  |||||    |||   ||   |||| |||||    || ||| |  | |  | ||| |  
gtaatttcttttttatttttttattttcccctctcccttgtgactgtaggattaggtttttgataaaatgtgcctcaatgtttgactatacaaatggaaatcactgttctgtagGATGGTGACATTGAGAAAGCAACGGATTGGATATTTAACAATCTCGATGC-ATCAGTC--TCCAGTATGAATGCTGCCCCATCAACCTCTGCATCCACTACCA
















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|110413005|gb|EC978774.1|EC978774
EST:     TTTCATTTGGTTTTCAGGAAGACATTTCTCGGAGGGCATTGAGAGCATCG                         GGTGGTGATATTGAGAAAGCAACTGATTGGATATTTAGCAATCCTGATGCT
genomic: TTTCATTTGGTTTTCAGGAAGACATTTCTCGGAGGGCATTGAGAGCATCGgtaaaatttc ... ggattggcagGGTGGTGATATTGAGAAAGCAACTGATTGGATATTTAGCAATCCTGATGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcaattttcttgtggtaggttatgggatttgcctgacttttggggattggcagGGTGGTGATATTGAGAAAGCAACTGATTGGATATTTAGCAATCCTGATGCTGCTAGTTCATCAGATATGGATGCTACAACAAGCAGTACTCCTACTGCTG
                                gcctgac  putative branch site (score: 3)
     attttctt  TA-rich tract