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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggcatccaaaagcatttgtctgtataagcctggtattgcaaacatattttgctgtaggtcagttttactactgcagatgtctccagggcactcattcctgttgtgatccttttaattgtttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAATGTGACTCTTCCGAAGGGAACATATGTAAAACTACAGCCCCATACAACAG

Basic information

species Vitis vinifera
transcript Vv03s0038g00750.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g00750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G34630.2 (Glycine max), 3'ss of exon 6
gtaggcatccaaaagcatttgtctgtataagcctggtattgcaaacatattttgctgtaggtcagttttactactgcagatgtctccagggcactcattcctgttgtgatccttttaattgtttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAATGTGACTCTTCCGAAGGGAACATATGTAAAACTACAGCCCCATACAACAG
|||||||| |||||| | |||| |||                 || |||    | |||| |   |||| |||| |   | | |     | |   | | |  | ||   ||   |    || |    |  ||||||||||| |||||||| ||||||||||| |||| |||  | |||||||||||||| ||||| ||||| |||||||| ||  |||||||||| |||| ||
gtaggcattcaaaagtaattgtttgtg----------------aatata----ggtgtaagcttgtttcactaatatggttctgctttgagtttttagttttttta--attgatgctgttttcatata-cagATGATGGAGAACATGCTTTTACAAGAGGGGGACATTGTCAAAGTGAAAAATGTGACACTTCCAAAGGGGACATATGTTAAGTTACAGCCCCACACAAAAG

upper sequence: Vv03s0038g00750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G05030.1 (Glycine max), 3'ss of exon 6
gtaggcatccaaaagcatttgtctgtataagcctggtattgcaaacatattttgctgtaggtcagttttactactgcagatgtctccagggcactcattcctgttgtgatccttttaattgtttcctgt-cagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAATGTGACTCTTCCGAAGGGAACATATGTAAAACTACAGCCCCATACAACAG
|||||||| |||||| | |||| |||                 || |||    | |||| |   |||| |||| |   | |  ||    |    |  ||  | || |  |  |  |  |  |||| | | ||||||||||| |||||||| ||||||||||| |||| |||  | |||||||||||||| ||||| ||||| |||||||| ||  ||||||| || |||| ||
gtaggcattcaaaagtagttgtttgtt----------------aatata----gttgtacgcttgtttcactaatatggttcgctttgagattttagttttttttttt-tgttgatgctgttttcatatacagATGATGGAGAACATGCTTTTACAAGAGGGGGACATTGTTAAAGTGAAAAATGTGACACTTCCAAAGGGGACATATGTTAAGTTACAGCCTCACACAAAAG

upper sequence: Vv03s0038g00750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G21270.3 (Arabidopsis thaliana), 3'ss of exon 6
gtaggcatccaaaagcatttgtctgtataagcctggtattgcaaacatattttgctgtaggtcagttttactactgcagatgtctccagggcactcattcctgttgtgatccttttaattgtttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAATGTGACTCTTCCGAAGGGAACATATGTAAAACTACAGCCCCATACAACAG
                                   |||      |  |   |   |||  || | |   | ||||   |||    |  | | ||| |      |  |  |    ||  ||| |      ||||||||| | ||  ||||  | ||||| ||||||| ||||   || | |||||| |||||||| |||||||| || || |||||||||||||| |||||||
-----------------------------------gtaagaatcagtttcctctttgtttgtgaatcgaagtactctggat----catgtggacttaccagactgattgtttgcttctttgatataatccagATGATGCAGAATCTGCTGCTGCAAGAAGGAGACATTGTGAGAGTTAGAAATGTCACTCTTCCAAAGGGAACTTACGTTAAACTACAGCCCCACACAACAG

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|110687487|gb|EE064951.1|EE064951
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAGAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|30126806|gb|CB912145.1|CB912145
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|110416730|gb|EC982730.1|EC982730
EST:     GAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAAAACATGTTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|110698550|gb|EE076176.1|EE076176
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|26262376|gb|CA813439.1|CA813439
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAGAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|26262164|gb|CA813227.1|CA813227
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAGAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|71856948|gb|DT006003.1|DT006003
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAGAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|110724233|gb|EE099882.1|EE099882
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|110723124|gb|EE100074.1|EE100074
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|294966730|gb|GW837749.1|GW837749
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|71868328|gb|DT017383.1|DT017383
EST:     GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAGAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GAGTTCTGGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
EST: gi|110391465|gb|EC956442.1|EC956442
EST:     GGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGG                         ATGATGGAGAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT
genomic: GGAATTCATAGCTGAAGAGGGCATGATCTATATGCCATATTGGgtaggcatcc ... ttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatgtctccagggcactcattcctgttgtgatccttttaattgtttcctgtcagATGATGGAAAACATGCTATTACAAGAGGGAGACACTGTGCAGGTGAAAAATGTGACTCTTCCGAAGGGAACATATGTAAAACTACAGCCCCATACAACAG
                                   ttttaat  putative branch site (score: 3)
                                         ttgtttcct  CT-rich tract
                                   ttttaattgttt  TA-rich tract