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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtatctgtaaaaagtagctgcatttagtttttttgtcacctaaactagattagttctcttcagcttgatcttcaactatattcaatgatctatttagatgttcatagagctcactgtttcattttggctatatatggtagGTTATTGTGGGCTATCTTCTTGCTGGTTCAATTATTGGACCAGGGGGCCTAAAATTCATCAGCGAAATGGTACAG

Basic information

species Vitis vinifera
transcript Vv16s0022g02060.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g02060.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G27940.1 (Glycine max), 3'ss of exon 7
---------------------------------------gtttgtat-ctgtaaaaagtagctgcatttagtttttttgtcacctaaactagattagttctcttcagcttgatcttcaactatattcaatgatctatttagatgttcatagagctcactgtttcattttggctatatatggtagGTTATTGTGGGCTATCTTCTTGCTGGTTCAATTATTGGACCAGGGGGCCTAAAATTCATCAGCGAAATGGTACAG
                                        | | ||| | ||| |   |      |||||  || | | | |   | | ||  | | || | |   |  ||  |||||   |||   | | ||||||  |||   |  | ||  |||     |  ||||   || | ||| |||||||||||||||||||||||||| || ||  ||||||||||||| ||  | || ||||| || |||||||| |||
gtctgtaactgttaccatttctcattatgacatttgacattctttatgcagtagatgattttcatatttaaattatattttagtgatattaagtaatttattt---gtgtggacttcagtgata---agtaatctatgcagaatgt--tggatttcatccacttttttttttta-acatg-tagGTTATTGTGGGCTATCTTCTTGCAGGCTCCCTTATTGGACCAGGCGGTTTGAAGTTCATTAGTGAAATGGTGCAG
















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|71890836|gb|DT039891.1|DT039891
EST:     TAGTTTCTGCTGCCATTGGTGGAATTATCTTTTCCTGCCTGGGACAACCG                         GTTATTGTGGGCTATCTTCTTGCTGGTTC
genomic: TAGTTTCTGCTGCCATTGGTGGAATTATCTTTTCCTGCCTGGGACAACCGgtttgtatct ... tatatggtagGTTATTGTGGGCTATCTTCTTGCTGGTTC
EST: gi|77585285|gb|DV221734.1|DV221734
EST:     TAGTTTCTGCTGCCATTGGTGGAATTATCTTTTCCTGCCTGGGACAACCG                         GTTATTGTGGGCTATCTTCTTGCTGGTTCAATTATTGGACCAGGGGGCCTA
genomic: TAGTTTCTGCTGCCATTGGTGGAATTATCTTTTCCTGCCTGGGACAACCGgtttgtatct ... tatatggtagGTTATTGTGGGCTATCTTCTTGCTGGTTCAATTATTGGACCAGGGGGCCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatctatttagatgttcatagagctcactgtttcattttggctatatatggtagGTTATTGTGGGCTATCTTCTTGCTGGTTCAATTATTGGACCAGGGGGCCTAAAATTCATCAGCGAAATGGTACAG
                      agctcac  putative branch site (score: 3)
     tatttagat  TA-rich tract