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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagatggatttaattcacatggaagtagaatcccataaagttgtacaaggtgtgattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC

Basic information

species Vitis vinifera
transcript Vv19s0085g00600.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 10
gtatgagatggatttaattcacatggaagtagaatcccataaagttgtacaaggtgtgattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC
   |  |||| |   ||     ||  |  | |  |  | || | || |     |  ||| | |     ||   |||  ||||||||||| |||||||| || || || || |||||||||||||| ||||||||||| || |||||||| ||||| |||||||| ||||| || || ||  
--gtacgatgaaccaaaa----atctaccttgcttttc-tagatttctgttttggctgactgttttgattccttat--tagGCTGTTGGGAAAGTCCTCCCTGAGCTAAATGGAAAGCTCACTGGTATGGCCTTCCGAGTTCCAACACCAAATGTGTCTGTTGTCGACTTGACCTGCCGGA

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os06g45590.1 (Oryza sativa), 3'ss of exon 10
gtatgagatggatttaattcacatggaag---tagaatcccataaagttgtacaaggtgtgattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC
   | |  |    |         ||| ||   |    |    | |||||   || | |   |  ||     |||| |||  |||||||||||||| |||||||||| | | ||||| || |||||||| ||||||||||| || || |||||||| |||||||| || ||||| || || || |
--gttatttcttctcgcggtgagtgggagagttcctcttttttcaagtttctcatgttcaaaccttttgc-tttgatat--tagGCTGTTGGAAAGGTCCTTCCAGCATTAAACGGGAAACTCACTGGTATGGCCTTCCGAGTTCCTACACCTAACGTCTCTGTAGTTGACTTGACATGCCGTC

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G051004_T01 (Zea mays), 3'ss of exon 10
---gtatgagatggatttaattcacatggaagtagaatcccataaagttgtacaaggtgtgattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC
   |    ||    |   |   ||   | |  |   |  |    || || | ||  |  ||||||      |||| | |||  ||||||||||||||| || || || || || |||||||||||||| ||||||||||| || |||||||| |||||||||||||||||||| || || ||  
gtagctgaagccaaaggcacaccatgcgtattttagactc----aaattttgcactgactgatttcac---tttgttgtca--gGCTGTTGGAAAAGTTCTGCCTGAGCTGAATGGAAAGCTCACTGGCATGGCCTTCCGAGTTCCAACACCAAATGTCTCTGTTGTGGACTTGACATGCCGGA

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 10
gtatgagatggatttaattcacatggaagtagaatccca-taaagttgtacaaggtgtgattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC
   |           ||  ||||      |    |   | | || || | ||     || |||  ||| | | ||     ||||||||||||||||||| || || || || ||||| |||||||| ||||||||||| || |||||||| ||||||||||||||||| || || || ||  
--gtagctgaagccaaaggcacaccatgtttagtttagactcaaattttgcacttactggtttc-actttattgt----cagGCTGTTGGAAAAGTCCTGCCTGAGCTGAATGGAAAACTCACTGGTATGGCCTTCCGAGTTCCAACACCAAATGTCTCTGTTGTGGATTTGACATGCCGGA

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G16300.1 (Arabidopsis thaliana), 3'ss of exon 10
gtatg-agatggatttaatt-cacatggaagtagaatcccataaagttgtacaaggtgtgattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC
|||   | ||   |  | ||  | ||  |  ||| |||    ||   | |  |||   ||| |||   |  |||     |||||||||||| || |||||||| |||||||| ||||| || || |||||||||||||| ||||||||||| ||||||||||||||||| |||||||||||||
gtacccaaatttgtacagttatatataaacatagcatctgg-aatcatatttaagccatgactttt-ttacttgtctcaatagGCTGTTGGTAAGGTCCTTCCGGAACTCAATGGAAAACTAACAGGAATGGCCTTCCGTGTCCCAACACCAAATGTCTCTGTTGTGGATTTAACTTGTCGAC

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 10
gtatg---agatggatttaattcacatggaagtagaatcccataaagttgtacaaggtgt---gattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC
|||     | |   |  |  ||  |       |  |||      || | |   |   | |      | ||  | |||| |    |||||||| || ||||| ||||||||||| || || || || || |||||||||||||| || |||||| | ||||| ||||| ||||| |||||||||||||
gtacacaaaaactcacatggttatcgcaagcatgtaattatcctaaatcgggaatcatatctgagctgtggttttttgatcaagtagGCTGTAGGTAAAGTTCTTCCAGAACTGAATGGGAAACTTACGGGAATGGCCTTCCGTGTACCAACATCGAATGTTTCTGTGGTGGATTTAACTTGTCGAC

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|71856406|gb|DT005461.1|DT005461
EST:     GCCGAGGTGCTTCACAAAATATCATCCCAAGCTCCACTGGTGCTGCAAAG                         GCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCC
genomic: GCCGAGGTGCTTCACAAAATATCATCCCAAGCTCCACTGGTGCTGCAAAGgtatgagatg ... ggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCC
EST: gi|30131309|gb|CB916648.1|CB916648
EST:     GCCGAGGTGCTTCACAAAATATCATCCCAAGCTCCACTGGTGCTGCNAAG                         GCTGTTGGAAAAGTCCTTCCAGAACTNCA-CGGANAGCTCACTGGAATGGC
genomic: GCCGAGGTGCTTCACAAAATATCATCCCAAGCTCCACTGGTGCTGCAAAGgtatgagatg ... ggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACT-CAACGGAAAGCTCACTGGAATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtagaatcccataaagttgtacaaggtgtgattttgactgtttggtatcatagGCTGTTGGAAAAGTCCTTCCAGAACTCAACGGAAAGCTCACTGGAATGGCCTTCCGCGTCCCAACACCTAATGTCTCTGTTGTGGACTTAACTTGTCGAC
                                 ttttgac  putative branch site (score: 3)
            ataaagtt  TA-rich tract