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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgattcgcatcacattgtcacccatatatatcatgatctgtagcttattttatcggtcatttgctttcttctccgtccttttcctctagtggaatatctgtcctctttaatcattcattcatttggtttttcttcttttgtatatatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGGAACAGGTCCGGCCAACCCTACATTTTACAGACAAATGTCTTCACGGGAG

Basic information

species Vitis vinifera
transcript Vv01s0150g00460.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0150g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os11g33270.1 (Oryza sativa), 3'ss of exon 1
gtgagtgattcgcatcacattgtcacccatatatatcatgatctgtagcttattttatcggtcatttgctttcttctccg-tccttttcctctagtggaatatctgtcctctttaatcattcattcatttggtttttcttcttttgtatatatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGGAACAGGTCCGGCCAACCCTACATTTTACAGACAAATGTCTTCACGGGAG
                                                         |  | |     | ||  || | | |||| |||| ||  ||     |   |  ||    |||  | ||   | |||||||| | | || |   ||  ||||||||||| || || ||||| ||||| || || || ||||| |||||| ||||||||||| | ||  | || |||||  | ||||| || |||||| | || |
--------------------------------------------------------gtacgccgccgccattgctccctgatcctcttccccttctgc----ttcttgatcggagatcgatgat--gtgtggtttttttgcattggggaat--ttgcagCTGTCGTCGCAGAACTCGGAGCACGACGAGATCGACTTCGAGTTCCTGGGGAACAGGACGGGGGAGCCGTACATCCTGCAGACGAACGTCTTCTCCGGCG
















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|22008967|gb|BQ794001.1|BQ794001
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|110706358|gb|EE081812.1|EE081812
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|71855708|gb|DT004763.1|DT004763
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAAT
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAAT
EST: gi|71857132|gb|DT006187.1|DT006187
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|349830947|gb|FQ418231.1|FQ418231
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|110720672|gb|EE096797.1|EE096797
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|110689340|gb|EE065480.1|EE065480
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|110382728|gb|EC947048.1|EC947048
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|71857756|gb|DT006811.1|DT006811
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|71858756|gb|DT007811.1|DT007811
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|161716374|gb|FC064899.1|FC064899
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|110382654|gb|EC946968.1|EC946968
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|33404113|gb|CF209740.1|CF209740
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|71858567|gb|DT007622.1|DT007622
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|71859446|gb|DT008501.1|DT008501
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|161717282|gb|FC069187.1|FC069187
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
EST: gi|71859081|gb|DT008136.1|DT008136
EST:     AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTAT                         CTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG
genomic: AAATAAAGATGGTTCCAGGGGATTCTGCGGGAACTGTAACTGCTTTCTATgtgagtgatt ... atatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcctctttaatcattcattcatttggtttttcttcttttgtatatatttgcagCTGTCTTCTCAAAACTCAGAGCATGATGAAATAGACTTTGAGTTCTTGGGGAACAGGTCCGGCCAACCCTACATTTTACAGACAAATGTCTTCACGGGAG
      ctttaat  putative branch site (score: 4)
                            tttttcttcttttgta  TA-rich tract