Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttatctgtttcccaccgagtttcactgagtttcattgagctcctcttctaattccatctcatctttattttgtttgtattagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGGATCAGGCTGTTTTGGATACAATGCGTGCGAAGATCGATGATGAGCTGAA

Basic information

species Vitis vinifera
transcript Vv17s0000g10250.t01
intron # 1
splice site 3'
intron type U2

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|110729189|gb|EE105273.1|EE105273
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71858693|gb|DT007748.1|DT007748
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|34542760|gb|CF510992.1|CF510992
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71857011|gb|DT006066.1|DT006066
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|294964515|gb|GW838318.1|GW838318
EST:     CGAGAAAGTTCGCCTGAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110712269|gb|EE089694.1|EE089694
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110724247|gb|EE099910.1|EE099910
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71859215|gb|DT008270.1|DT008270
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71855361|gb|DT004416.1|DT004416
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71857736|gb|DT006791.1|DT006791
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71862879|gb|DT011934.1|DT011934
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71863776|gb|DT012831.1|DT012831
EST:     TTCGCCTCAAAGAAGTGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: TTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|30325221|gb|CD008483.1|CD008483
EST:     CGAGAAAGTTCGCCTGAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110711054|gb|EE087179.1|EE087179
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110694246|gb|EE071183.1|EE071183
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71858120|gb|DT007175.1|DT007175
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|161714100|gb|FC064389.1|FC064389
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|161717043|gb|FC065903.1|FC065903
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71855100|gb|DT004155.1|DT004155
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|161707363|gb|FC055180.1|FC055180
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110712500|gb|EE090189.1|EE090189
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110687666|gb|EE065338.1|EE065338
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|161720333|gb|FC071186.1|FC071186
EST:     CGAGAAAGTTCGCCTCAAAG-AGTGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110406742|gb|EC972324.1|EC972324
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71859077|gb|DT008132.1|DT008132
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|32267714|gb|CD716677.1|CD716677
EST:     CGAGAAAGTTCGCCTGAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71856356|gb|DT005411.1|DT005411
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATGTGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|352768067|gb|FQ467206.1|FQ467206
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71856432|gb|DT005487.1|DT005487
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110713597|gb|EE089655.1|EE089655
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|30125263|gb|CB910602.1|CB910602
EST:     CGAGAAAGTTCGCCTGAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|30133773|gb|CB919112.1|CB919112
EST:     CGAGAAAGTTCGCCTGAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|110711072|gb|EE087210.1|EE087210
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71854903|gb|DT003958.1|DT003958
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|37190141|gb|CF609490.1|CF609490
EST:     CGAGAAAGTTCGCCTGAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGCTTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|30326142|gb|CD009404.1|CD009404
EST:     CGAGAAAGTTCGCCTGAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
EST: gi|71855978|gb|DT005033.1|DT005033
EST:     CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACG                         ATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG
genomic: CGAGAAAGTTCGCCTCAAAGAAGAGGTGTTCGCCGCTGTCAAAGTCGACGgtaaagttat ... attagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgagctcctcttctaattccatctcatctttattttgtttgtattagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGGATCAGGCTGTTTTGGATACAATGCGTGCGAAGATCGATGATGAGCTGAA
             ttctaat  putative branch site (score: 2)
                            atctttattttgtttg  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagttatctgtttcccaccgagtttcactgagtttcattgagctcctcttctaattccatctcatctttattttgtttgtattagttcagATATGGCTTCGTTATACGAAACCCTAGCCGCCGATTCGGTGCTGGAAATGGATCAGGCTGTTTTGGATACAATGCGTGCGAAGATCGATGATGAGCTGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA