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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcattgctgttttctattgcatttcaatttaattgtctttgctgtttgttccattagttgaaattagcctgatgcttcaactttgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT

Basic information

species Vitis vinifera
transcript Vv05s0094g01560.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G038309_T03 (Zea mays), 3'ss of exon 5
gttcattgctgttttctattgcatttcaatttaattgtcttt--gctgtttgttccattagttgaaatta--gcctgatg--cttcaact--ttgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT
       |   ||||   |     |    ||||| | | | |  ||| | || ||  ||| ||    ||   |  ||||   | |  |||   |   | | |||||||| | ||| ||||||||||||||||||| ||| ||||| || ||  | ||||||||| | ||||||||||| || || ||||| ||
-------gtattttttcctcattctctcttttaagtatatctgagctatgtgctcttttaattttcctttttgtttgattatccttgactgcctatatcaccagGCTTTAGGAGATCATGGTTTCCCTGTTCCAACTGCTGTGGATTGCAACCGGCATTGTGTGATCATGTCACTTGTGCAGGGATATCCTCT

upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 5
gttcattgctgttttctattgcattt---caatttaattgtctttgctgtttgttccattagttga--aattagcctgatgcttcaactttgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT-
 ||  || |   || || |    |||   | || ||  ||| |       || ||  |||  |||    ||| ||  |   ||     |||||||||| |||||||||||  |||||| |||||||||||||||||  | ||  | |||||||||||||| || |||||||| |||||||||||||| || 
ttttgtttcaccttcctctcctttttagtctatgtagctgtatacttgaattattatattttttgtttgatttgctggtgactcatgatttgcttgagtaggCTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGACATTGTGTAGTCATGTCACTCGTCCAAGGTTATCCTCTG

upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G33320.1 (Glycine max), 3'ss of exon 5
-gttcattgctgttttctattgcatt---tcaatttaattgtctttgctgtttgttccattagttgaaattagcctgatgcttcaactttgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT
  ||  ||     || || |    ||   || || ||| ||| |       |||||  |||   |   ||| ||  |   | |   |||||||||||||||||||||||  |||||| |||||||||||||||||  | ||    |||||||||||||| || |||||||| ||||| ||||| || ||
gttttgttttaccttcctctcatttttagtctatgtaactgtatacttgaattgttatattttgtttgatttgctagtgacatatgctttgcttgagcagGCTTTGGAAACACATGGATTCCCTGTTCCAAATGCAATAGAAAACAATAGACATTGTGTAGTCATGTCACTCGTCCAGGGTTACCCTCT

upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G51270.1 (Arabidopsis thaliana), 3'ss of exon 6
gttcattgctgttttctattgcatttcaatttaattgtctttgctgtttgttccattagttgaaatt--agcctgatgc---ttcaactt-tgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT
  | |||||  | ||| | |  | |  ||    ||| |  | | ||| |  ||  ||  ||  | ||   |||| |||    ||   ||| ||  |||||||||||||||||||||||  || || |||||||| ||  | ||||| ||||||||||||||  | ||||| ||||| |||||||| ||  |
-gttattgccttcttccact--aatgtaacactattcttgtgggtgtatcatctttttattttatttttggcctaatgtttgtttggcttctgggtgagcagGCTTTGGAAGAACATGACTTTCCGGTTCCAAAAGCTATTGACTGCAATAGACATTGTGTTATCATGTCCCTTGTGCAAGGTTACCCCAT

upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G51270.2 (Arabidopsis thaliana), 3'ss of exon 6
gttcattgctgttttctattgcatttcaatttaattgtctttgctgtttgttccattagttgaaatt--agcctgatgc---ttcaactt-tgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT
  | |||||  | ||| | |  | |  ||    ||| |  | | ||| |  ||  ||  ||  | ||   |||| |||    ||   ||| ||  |||||||||||||||||||||||  || || |||||||| ||  | ||||| ||||||||||||||  | ||                        
-gttattgccttcttccact--aatgtaacactattcttgtgggtgtatcatctttttattttatttttggcctaatgtttgtttggcttctgggtgagcagGCTTTGGAAGAACATGACTTTCCGGTTCCAAAAGCTATTGACTGCAATAGACATTGTGTTATCAT------------------------

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|110427485|gb|EC993924.1|EC993924
EST:     GGCTCTATTTGTCACGGCTTGCTGCACTCAAAGAATTTGCCTTTATGAAG                         GCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGA
genomic: GGCTCTATTTGTCACGGCTTGCTGCACTCAAAGAATTTGCCTTTATGAAGgttcattgct ... gcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgtttgttccattagttgaaattagcctgatgcttcaactttgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT
                           gcctgat  putative branch site (score: 4)
                                         ctttgctt  putative PPT
             attagttgaaatta  TA-rich tract