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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttgaaaccgattgtgttgctcccaaagtcaatatgtaggctgttccaattttcaagtagattaaatgcttgtatccattttaatgtctctttacattatgctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAGCATGAGCTAGTTCTCGGGATCATCGACTTCATGAGGCAGTATACATGGG

Basic information

species Vitis vinifera
transcript Vv09s0002g00380.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os08g34950.1 (Oryza sativa), 3'ss of exon 10
gtaagttttgaaaccgattgtgttgctcccaaagtcaatatgtaggct-gttccaattttcaagtagattaaatgcttgtatc-cattttaatgtctctttacattatgctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAGCATGAGCTAGTTCTCGGGATCATCGACTTCATGAGGCAGTATACATGGG
  | | |||   |  ||  |    |||   ||  |  || || ||||  ||  ||   ||| | || ||    | ||  |||  |   ||||||     ||      | || ||  ||    |||||||||||||||||||||| || || || || ||||||||||| |||||  | ||||| || || || || || |||||||||||||||||||
--agggtttatga--gacag----gctgataagatttat-tgcaggccagtagcagcattcga-tatatc---ttctcatatgactcattaatgaagtcttg-----tcctcttgtagGGAATTGATGTGATGGATTACTCATTGCTTGTGGGAGTTGACGAGGAGAAACATGAATTGGTTCTGGGAATAATTGATTTTATGAGGCAGTATACATGGG

upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G05100.1 (Glycine max), 3'ss of exon 11
gtaagttttgaaaccgattgtgttgctcccaaagtcaatatgtaggctgttccaattttcaagtagattaaatgc----ttgtatccattttaatgtctctttacattatgctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAGCATGAGCTAGTTCTCGGGATCATCGACTTCATGAGGCAGTATACATGGG
|||||| || |       ||||    ||          ||  |      ||    |||||  | | | |  |  |    || | | ||| |     |   | |   ||   ||  | ||||| |||| ||||||||| || || ||||||||||| ||||| || |||||||||||| | ||| | || ||||| || ||||||||||||||||| ||||
gtaagtcttaactttatctgtgacattctttcttctcttaactgtctcctttttcttttcttgcaaaatgcacaccatattatgttcatctcc-catgaatctgttttcctcttgtgcagTCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAGCATGAGTTGGTTATTGGAATCATTGATTTCATGAGGCAGTATACCTGGG

upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA16G01590.1 (Glycine max), 3'ss of exon 12
gtaagttttgaaaccgattgtgt----tgctcccaaagtcaatatgtaggctgttccaattttcaagtagattaaatgcttgtatccattttaatgtct-ctttacattatgctatt----------acagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAGCATGAGCTAGTTCTCGGGATCATCGACTTCATGAGGCAGTATACATGGG
|||| | |  ||||    | |||    | || ||       |  |||   || |||   |||           || |||   |   ||| || |||||    | |||| |  || ||           ||||| |||||||||||||| || || ||||||||||| ||||| || || ||||||||| | ||| | || ||||| || ||||||||||||||||| ||||
gtaaatctcaaaactttatatgtggcattcttccttctcttaactgtctccttttcttgtttcttttcttgcaaagtgcacatcatcatctttatgtccatctcacataaatctgttttcctcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAGCATGAGTTGGTTATTGGAATCATTGATTTCATGAGGCAGTATACTTGGG

upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagttttgaaaccgattgtgttgctcccaaagtcaatatgtaggctgttccaattttcaagtagattaaatgcttgtatccattttaatgtctctttacattatgctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAGCATGAGCTAGTTCTCGGGATCATCGACTTCATGAGGCAGTATACATGGG
                 || | ||  ||   ||  || |   ||  ||   | | | ||  |  || || | |     || | || ||              ||  |   || ||||  | ||||||||||||||| ||||| || || || ||||| || || ||| | ||||||||||||||||| ||||||||| |||||||||| |||||||
------------gtgagttttattcttctgcaaaccatt---tactcttcactactctttgaaaaggtttattagcaataactatatt--------------tttcgtgtttgcagTTGGGTGATGTGATGGATTATTCATTGCTAGTAGGCGTGGATGAAGAAAAGAACGAGCTAGTTCTCGGGATTATCGACTTCTTGAGGCAGTACACATGGG

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|34547915|gb|CF516147.1|CF516147
EST:     GAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: GAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|349814824|gb|FQ410047.1|FQ410047
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATCCTTCTTTTCTTGCA                         TCTGTTGATGTGA
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGA
EST: gi|351023163|gb|FQ432546.1|FQ432546
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|351037296|gb|FQ457129.1|FQ457129
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|349813704|gb|FQ413938.1|FQ413938
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|349813666|gb|FQ413900.1|FQ413900
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|30320712|gb|CD003974.1|CD003974
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|349823260|gb|FQ400239.1|FQ400239
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATTTGATGGATTACTCAGTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|30128919|gb|CB914258.1|CB914258
EST:     CAAAGAGNGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGGAT-ACTCATTTACTGGT-GGGGTGGACGAGGAGA
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGG-ATTACTCATT-ACTGGTTGGGGTGGACGAGGAGA
EST: gi|349821544|gb|FQ408103.1|FQ408103
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|352791391|gb|FQ480970.1|FQ480970
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACCAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|349814303|gb|FQ398743.1|FQ398743
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGGTGGACGAGGAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGG-TGGACGAGGAG
EST: gi|110364315|gb|EC923856.1|EC923856
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|349814433|gb|FQ398873.1|FQ398873
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAA
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTC-TGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAA
EST: gi|30321214|gb|CD004476.1|CD004476
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG
EST: gi|349815793|gb|FQ400949.1|FQ400949
EST:     CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCA                         TCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAA
genomic: CAAAGAGGGTGTTGGAGAGAGCTGTCTGGAATGATACTTCTTTTCTTGCAgtaagttttg ... gctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtagattaaatgcttgtatccattttaatgtctctttacattatgctattacagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAGCATGAGCTAGTTCTCGGGATCATCGACTTCATGAGGCAGTATACATGGG
                       ttttaat  putative branch site (score: 3)
                      attttaatgt  TA-rich tract