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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttctttaattctctctccttttatatatgctttgtgggcaacctgcaggagctgttttcttgattgtttgtatgtgtttttggtttcagATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTCTTGGGGCTTGCCTACTTGGGAATCAGAAGGCATTTGCACCAACGTTACA

Basic information

species Vitis vinifera
transcript Vv17s0000g02700.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g02700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G05620.1 (Glycine max), 3'ss of exon 1
gttagtttctttaattctct----ctccttttatatatgctttgtgggcaacctgcaggagctgttttcttg-attgtttgtatgt----gtttttggtttcagATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTCTTGGGGCTTGCCTACTTGGGAATCAGAAGGCATTTGCACCAACGTTACA
||||||     ||   | |     |   ||||||||||    | |  | |      |   | |   |  |||  |  ||| | ||      ||| |   |  || |  | || || ||||||||||| | | ||||||| |||||||||||| | |||||| | || ||||||||||| |||||||| |||||  | |||||||
gttagtactagtagcaccccatacccttttttatatatatagtataagtatgtactacatgtttcatgtttgtgtcttttatgtgccataatttatttatgtagGTGATACATTTTGTGGACAAGCTTGAGTTGTGGCAAAGGCTGCCAGTGTTGTTGGGGTTAGCATACTTGGGAATTAGAAGGCACTTGCATTATCGTTACA

upper sequence: Vv17s0000g02700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G73680.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------------------------------------------------------gttagtttctttaattctctctccttttatatatgctttgtgggcaacctgcaggagctgttttcttgattgtttgtatgtgtttttggtttcagATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTCTTGGGGCTTGCCTACTTGGGAATCAGAAGGCATTTGCACCAACGTTACA
                                                                                  ||  ||   ||||     |    | | ||||    ||| |       ||        ||||   ||||| ||||  |     || |   | |||||||||||||| ||||||||||| ||  ||||||||||  | |||||| | || ||  | || ||||||||  |  |||| ||| | || ||||||||||
gtaaatacatctctctctttaacaagaacataaatacatctctgatctctctatctctctaaatatatgaactatatatgcttttcttctcttaagaaaataagttatcatatcgcttttataatttttcttattattttgttaatttgatcgtttaaaaaaaattatatatacagATTGTGCACTTAGTGGACAAGCTAGGATTGTGGCATAGATTTCCAGTGTTATTAGGAGTGGCTTACTTGGGGTTACGAAGACATCTACATCAACGTTACA
















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|294965600|gb|GW837199.1|GW837199
EST:     TCCTCCATATCGTGGCCAAAATGACTCTCTTTGACACCTTCTTGTTCTAT                         ATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTC
genomic: TCCTCCATATCGTGGCCAAAATGACTCTCTTTGACACCTTCTTGTTCTATgttagtttct ... ttggtttcagATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTC
EST: gi|352780892|gb|FQ466205.1|FQ466205
EST:     TCCTCCATATCGTGGCCAAAATGACTCTCTTTGACACCTTCTTGTTCTAT                         ATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTC
genomic: TCCTCCATATCGTGGCCAAAATGACTCTCTTTGACACCTTCTTGTTCTATgttagtttct ... ttggtttcagATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggcaacctgcaggagctgttttcttgattgtttgtatgtgtttttggtttcagATTGTGCACTTCGTGGACAAGCTGGGGGTGTGGCATAGGCTGCCAGTGCTCTTGGGGCTTGCCTACTTGGGAATCAGAAGGCATTTGCACCAACGTTACA
                       tcttgat  putative branch site (score: 4)
                                        tgttttt  putative PPT
                    ttttctt  TA-rich tract