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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctaatcataaccctctaatcaaactactaatcatgccacctcattaccaatttacccctcatattcataattgtaagtttttaacccttgttctccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTACCTGAAAAGGCACCGGTTTGCCGGTTACCAGTCAGAAATCGTACGGTCT

Basic information

species Vitis vinifera
transcript Vv06s0061g00560.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g00560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G08530.1 (Glycine max), 3'ss of exon 3
--gtaatctaatcataaccctctaatcaaactactaatcatgccacctcattaccaatttacccctcatattcataattgtaagtttttaacccttgttctccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTACCTGAAAAGGCACCGGTTTGCCGGTTACCAGTCAGAAATCGTACGGTCT
  | ||  |  || ||      | || ||   |   ||  |      | | |   | ||||    |  |||| ||  ||      |||  ||  || ||   | ||  |||   ||| | |||| |||||||   |||| |  |||  | |||   ||||||||| | |||||  |||||||||||||||||||||| || | ||| || 
tagcaaatttgtcgta-----tttatgaagaaaaagatattctttaattacttgtattttattatt--tatttatttttactgaattt--actgtt-ttaaactttgaagGAAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGATCGGCGGTTTTACCTGCAGAGGCAAAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCG

upper sequence: Vv06s0061g00560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G19910.1 (Glycine max), 3'ss of exon 3
gtaatctaatcataaccctctaatcaaactactaatcatgccacctcattaccaatttacccctcatattcataattgtaagtttttaacccttgttctccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTACCTGAAAAGGCACCGGTTTGCCGGTTACCAGTCAGAAATCGTACGGTCT-
       | | ||| |    |  | | | |  | |  | |       |||    | ||||   | || || ||  |||| | |   |      ||||  || || ||||   ||| | |||| |||||||   |||| |  |||  ||||||  ||||||||| | |||||  |||||||||||||||||||||| || | ||| ||  
-----tgatttatagcaaatttgtgatatttatgaagaagaagaaatattctttaattacttgt-atttttatttttgttaatgaat--tttctgttaacctttgcagGAA-GTGCGGACGGTGATATGGAGGAAGTTCAACGGTGACCGGAGGTTTTACCTGCAGAGGCATAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGG
















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|77584566|gb|DV221361.1|DV221361
EST:     GCAAAATGGAAGTCCATCCCAAGAACATTAGCGGACGATTTTACAGCAA                         GGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACGGGAAATTTTA
genomic: GCAAAATGGAAGTCCATCCTAAGAACATTAGCGGACGATTTTACAGCAAgtaatctaat ... tccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTA
EST: gi|161721601|gb|FC070811.1|FC070811
EST:     GGCAAAATGGAAGTCCATCCCAAGAACATTAGCGGACGATTTTACAGCAA                         GGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACGGGAAATTTTA
genomic: GGCAAAATGGAAGTCCATCCTAAGAACATTAGCGGACGATTTTACAGCAAgtaatctaat ... tccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttacccctcatattcataattgtaagtttttaacccttgttctccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTACCTGAAAAGGCACCGGTTTGCCGGTTACCAGTCAGAAATCGTACGGTCT
                              ttttaac  putative branch site (score: 2)
                             tttttaacccttgttc  CT-rich tract
            atattcataattgtaa  TA-rich tract