Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCTGCCCTCTTGAGGGTGCCACCTGTTGTGACGACCATTACAGCTGCTGCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattactactctacttaacagacaatatttttggtttttttcttccacgctatttttgtttacttatattttccaatggaacag

Basic information

species Vitis vinifera
transcript Vv03s0180g00010.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0180g00010.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os04g55650.1 (Oryza sativa), 5'ss of exon 4
ATGCTGCCCTCTTGAGGGTGCCACCTGTTGTGACGACCATTACAGCTGCTGCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattact-------actc-tacttaacagacaatatttttggtttttttcttccacgctatttttgtttacttatatttt--ccaatggaacag
 |||||||| || ||||| |||||||| || || || || |||||||||||||||||||| || ||| ||||  ||||| |    ||||||||||  |||||||  | |       | |  || || ||   || | ||    ||       ||||  |  ||| ||  |   || |   ||    ||   |||||
CTGCTGCCCACTCGAGGGCGCCACCTGCTGCGATGATCACTACAGCTGCTGCCCTCACGAGTACCCCATCTGCAATGTTCAGCAGGGAACCTGCCTCATGgtaagcaattgcagagattggtaatttactagcactgttgcaagtgcaagaattccctgtgattcttactgttttgttgcttgatgaacacaacag
















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|30301476|gb|CB978270.1|CB978270
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110359635|gb|EC921438.1|EC921438
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|349825534|gb|FQ419451.1|FQ419451
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|32461234|gb|CD802408.1|CD802408
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|32245472|gb|CD711291.1|CD711291
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|27582910|gb|CB005605.1|CB005605
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|30330180|gb|CD013442.1|CD013442
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|71867084|gb|DT016139.1|DT016139
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|22014356|gb|BQ799390.1|BQ799390
EST:     TTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: TTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110359808|gb|EC921969.1|EC921969
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|71867393|gb|DT016448.1|DT016448
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110379454|gb|EC944650.1|EC944650
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|22013463|gb|BQ798497.1|BQ798497
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|71878716|gb|DT027771.1|DT027771
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110361557|gb|EC925039.1|EC925039
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|156737323|gb|EV241444.1|EV241444
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110360483|gb|EC923621.1|EC923621
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110366592|gb|EC930503.1|EC930503
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110358221|gb|EC922281.1|EC922281
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|71880115|gb|DT029170.1|DT029170
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110358589|gb|EC922911.1|EC922911
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|32245939|gb|CD711758.1|CD711758
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|83276093|gb|DV940101.1|DV940101
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110360030|gb|EC922538.1|EC922538
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|22013784|gb|BQ798818.1|BQ798818
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110370499|gb|EC929851.1|EC929851
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|27585816|gb|CB008511.1|CB008511
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110378578|gb|EC943715.1|EC943715
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCNNNNNNNNCCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|30126652|gb|CB911991.1|CB911991
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110357710|gb|EC921394.1|EC921394
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|22014590|gb|BQ799624.1|BQ799624
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|71887963|gb|DT037018.1|DT037018
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|45368122|gb|CK906481.1|CK906481
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110363831|gb|EC927452.1|EC927452
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGACAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110358081|gb|EC922041.1|EC922041
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|110357733|gb|EC921435.1|EC921435
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
EST: gi|83274936|gb|DV939032.1|DV939032
EST:     GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATG                         AGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA
genomic: GCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattacta ... aatggaacagAGCAAGGGCAACCCATTGTCGGTAAAAGCATGGAGGCGAACCCCTGCTAGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGCTGCCCTCTTGAGGGTGCCACCTGTTGTGACGACCATTACAGCTGCTGCCCTCACGAATATCCCGTCTGTGATGTTGATGCTGGAACCTGCCAAATGgtaattactactctacttaacagacaatatttttggtttttttcttccacgctatttttgtttacttatattttccaatggaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA