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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcttcgatacccattgtattttgatctaagttttattgcaacttgtttgttgttcattgccttagattttctatgtgaaattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCACGCCATCACTG

Basic information

species Vitis vinifera
transcript Vv01s0010g02460.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g02460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g38920.1 (Oryza sativa), 3'ss of exon 6
gttgcttcgatacccattgtattttgatctaagttttattgcaacttgtttgttgttcattgccttagattttctatgtgaaattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCACGCCATCACTG
   |  |  || |  ||   |||| |  |    |  | |    |  |   |  |  |    |  |||   |  |  | ||   | |||||||| || ||||||||||||||||| ||||||||| | ||||||||||| || ||||||||||
---gtgtttattctgatataatttggcgcctgctcctgtgcgcatgtagctactactgga-gttttaagctaacattttgtcttgttacagGTCATCAATGACAGATTTGGCATCGTTGAGGGTTTGATGACCACTGTCCATGCCATCACTG

upper sequence: Vv01s0010g02460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os04g40950.1 (Oryza sativa), 3'ss of exon 6
----gttgct---tcgatacccattgtattttgatctaagttttattgcaactt-----gtttgttgttcattgccttaga-----ttttctatgtgaaatt------ttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCACGCCATCACTG
    ||| ||   ||  |  |  |||| |  || |  || || | | |  |  |       ||| |    | | || ||       || ||  | | |||||       | |||||||| |||||||| ||||| |||||||||||| | ||||||||||| || || |||||||
gtgtgttcctcactcattttcacttgtctactgttgcaaattgtgtggtgatgttaagaaattggtcactactaccatatgaagccttgtccttatcaaattgtctgcctgcagGTTATCAATGACAGGTTTGGTATTGTTGAGGGTTTGATGACCACTGTCCATGCAATCACTG

upper sequence: Vv01s0010g02460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G071630_T02 (Zea mays), 3'ss of exon 5
gttgcttcgatacccattgtattttgat-ctaagttttattgcaacttgtttgttgttcattgccttagattttctatgtgaaatttta---cagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCACGCCATCACTG
          | |  ||  |  |||  | || |  |  |||||  |||     || |  |||  || | | |   ||  |    ||||    ||||| || |||||||  || || |||||||||||||| |||||||||||||| ||||||||||
---------gtgcttatgttgctttactgctgacataaattgct-cttaggcattctatattatctaaaactggttacttttttttttgctgcagGTCATCAATGACAAGTTCGGTATTGTTGAGGGTCTGATGACCACTGTTCATGCCATCACTG

upper sequence: Vv01s0010g02460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G046804_T02 (Zea mays), 3'ss of exon 6
gttgcttcgatacccattgtattttgatctaagttttattgcaacttgtttgttgt-tcattgccttagattttctatgtgaaattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCACGCCATCACTG
  |||   |     |  |  |   |  | ||  | ||  |||   |    ||| |  |||||   | |   | |||| |||  ||    ||||| ||| ||||||  || ||||||||||||||| | ||||| |||||||| ||||||||||
-gtgcactgtccttctcttaagcattctgtagctgtttctgctcttccaatgtaggatcatttgttaacgatgtcta-gtgtcataaaccagGTCATTCATGACAACTTCGGCATTGTTGAGGGTTTGATGACAACTGTTCATGCCATCACTG

upper sequence: Vv01s0010g02460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G176307_T01 (Zea mays), 3'ss of exon 6
gttgcttcgatacccattgtattttgat-ctaagttttattgcaacttgtttgttgttcattgccttagattttctatgtgaaatt-ttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCACGCCATCACTG
          | |  ||  |  |||  | ||    |  |||||  |||     |  |  ||  ||| | |||   ||  |    ||  | ||||| || |||||||  || || || ||||||||||| ||||||||||| || ||||||||||
---------gtgcttatgctgatttactgctgccataaattgct-cttagggatcctatatcacctaaaattggttacttatttttgctgcagGTCATCAATGACAAGTTCGGTATCGTTGAGGGTCTGATGACCACTGTCCATGCCATCACTG

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|33406621|gb|CF212248.1|CF212248
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGATAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161720959|gb|FC070345.1|FC070345
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110703819|gb|EE080998.1|EE080998
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|30134772|gb|CB920110.1|CB920110
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110701389|gb|EE078905.1|EE078905
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAA                         GTTATTAATGACAGATTTGGCATTGTTGAAGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110384047|gb|EC948461.1|EC948461
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110697161|gb|EE073909.1|EE073909
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161721814|gb|FC070505.1|FC070505
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161716699|gb|FC065571.1|FC065571
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGATAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110363529|gb|EC927123.1|EC927123
EST:     CTTGCTCCTCTGGCTAAG                         GTTATTAATGATAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: CTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|30134770|gb|CB920108.1|CB920108
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110687944|gb|EE065928.1|EE065928
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110373445|gb|EC937683.1|EC937683
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161713863|gb|FC062559.1|FC062559
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110707375|gb|EE083731.1|EE083731
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161718038|gb|FC067580.1|FC067580
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|71857565|gb|DT006620.1|DT006620
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161712390|gb|FC061695.1|FC061695
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTTCA
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTT-CA
EST: gi|71856620|gb|DT005675.1|DT005675
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161715330|gb|FC065818.1|FC065818
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTTTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110688396|gb|EE066900.1|EE066900
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|110371235|gb|EC935092.1|EC935092
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161719339|gb|FC068279.1|FC068279
EST:     TTGTTTCCCATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
EST: gi|161720005|gb|FC067735.1|FC067735
EST:     TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAG                         GTTATTAATGATAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC
genomic: TTGTTTCCAATGCTAGCTGCACTACCAACTGTCTTGCTCCTCTGGCTAAGgttgcttcga ... aattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgcaacttgtttgttgttcattgccttagattttctatgtgaaattttacagGTTATTAATGACAGATTTGGCATTGTTGAGGGTCTTATGACCACTGTTCACGCCATCACTG
                                      tatgtgaaatttta  TA-rich tract