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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacataaaagagaacaacacaagctttgtacaggtctctgatgcttgttattgttttgggtgttttaactctttatgtgtttgcacttgaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGGCCAAGATATCCATCATTCCCCGTGGCCAAGCAGGTGGTCTTACCTTTTT

Basic information

species Vitis vinifera
transcript Vv18s0001g00190.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g51029.1 (Oryza sativa), 3'ss of exon 2
gtacataaaagagaacaacacaagctttgtacaggtctctgatgcttgttattgttttgggtgttttaactctttatgtgtttgcacttgaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGGCCAAGATATCCATCATTCCCCGTGGCCAAGCAGGTGGTCTTACCTTTTT
    | |       || | |  | |||   ||  |      |    |  |  |||   | |  |  |||  | || |   |   |  || |||||||||||||||| |||||  | || ||||| || |||||||||||||||||||| || ||||| ||||||||||| ||||| ||||| ||||| || || || ||
--gtaaatcttgtcaccatattaacttgtgacttgagctgaaattatcctggtgtgcagaggttcctaatccatttt---tgaacttttcaatttgcagAGGCTGGTCATGCCCTTGTTGGTGCCCTCATGCCTGAATATGACCCTGTTGCTAAGATTTCCATCATTCCTCGTGGTCAAGCTGGTGGACTCACATTCTT

upper sequence: Vv18s0001g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G02200.1 (Glycine max), 3'ss of exon 2
gtacataaaagagaacaacacaagctttgtacaggtct-ctgatgcttgttattgttttgggtgttttaactctttatgtgtttgcacttgaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGGCCAAGATATCCATCATTCCCCGTGGCCAAGCAGGTGGTCTTACCTTTTT
|||   |          | |    |      || || |  | |   ||| |     ||||||| ||  | || ||| |    |  ||  |  |||| |||||||||| |||||  | || |||||  | |||||||||||||||||||| ||||||||||| || ||||| ||||||||||| |||||||| || |||||
gtatgcatttttttttta-atgttcaacacgcaagtttgttaagagttggttggtatttgggtattcaaccttttttt----tcccatgttgattttcagAGGCTGGCCATGCTCTAGTGGGTGCTTTAATGCCTGAATATGACCCTGTAGCCAAGATATCAATTATTCCTCGTGGCCAAGCTGGTGGTCTCACATTTTT

upper sequence: Vv18s0001g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G02100.1 (Glycine max), 3'ss of exon 2
gtacataaaagagaacaacacaagctttgtacaggtctc-tgatgcttgttattgttttgggtgttttaactctttatgtgtttgcacttgaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGGCCAAGATATCCATCATTCCCCGTGGCCAAGCAGGTGGTCTTACCTTTTT
          |    ||         ||   || || |  | |   ||| | |  |||||||| ||  | || ||| |   |||  |  |  |||| |||||||||| |||||  | || |||||  | ||||| |||||||||||||| ||||||||||| || ||||| ||||||||||| |||||||| || |||||
----------gtatgcattttttttattacccaagtttggtaagtgttggtttgtttttgggtattcaaccttttttt---tttctatgttgattttcagAGGCTGGCCATGCTCTAGTGGGTGCTTTAATGCCAGAATATGACCCTGTAGCCAAGATATCAATTATTCCTCGTGGCCAAGCTGGTGGTCTCACATTTTT

upper sequence: Vv18s0001g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G42270.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacataaaagagaacaacacaagctttgtacaggtctctgatgcttgttattgttttgggtgtttta---actctttatgtgtttgcacttgaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGGCCAAGATATCCATCATTCCCCGTGGCCAAGCAGGTGGTCTTACCTTTTT
                      || |   ||| | ||   | | ||| || | ||| |   ||| ||    ||||  | |    |   | |  |||||||||||||||||||||| || || |||||||||||||| || ||||| || |||||||||||||| || ||||| ||||||||||| ||||| || ||||||||
-------------------gttagatac-tactgatcctagctacttcttgt-gttattattgtgttgaccactcactgttcaataaaattgtaatttgcagAGGCTGGGCATGCTTTAGTTGGTGCACTTATGCCGGAGTATGATCCAGTGGCCAAGATATCGATTATTCCACGTGGCCAAGCTGGTGGGCTCACCTTTTT

upper sequence: Vv18s0001g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G50250.1 (Arabidopsis thaliana), 3'ss of exon 2
--gtacataaaagagaacaacaca-agctttgtacaggtctctgatgcttgttattgttttgggtgttttaactctttatgtgtttgcacttgaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGGCCAAGATATCCATCATTCCCCGTGGCCAAGCAGGTGGTCTTACCTTTTT
     |||   |   ||| | |   |     ||||    ||  ||| ||||||    || ||      | ||      |||  |||     | ||||| |||||||||| |||||  | || ||||| |||||||| |||||||| || || || ||||| || |||||||| ||||||||||| ||||| || || |||||
gttagcattttatctaactatatgtaatggagtacgcagctgggattcttgtt----ttctgaccacctcaa------atgaattt-----taaatttacagAGGCTGGTCATGCTCTAGTGGGTGCTCTTATGCCAGAATATGATCCGGTTGCAAAGATTTCTATCATTCCTCGTGGCCAAGCTGGTGGGCTCACTTTTTT

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|110391145|gb|EC956102.1|EC956102
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|110717414|gb|EE093251.1|EE093251
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|110383931|gb|EC948337.1|EC948337
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|110378764|gb|EC943912.1|EC943912
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTTGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|26262505|gb|CA813568.1|CA813568
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         TGGCTGGGCATGCATAGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|26262506|gb|CA813569.1|CA813569
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         TGGCTGGGCATGCATNGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|352790761|gb|FQ478309.1|FQ478309
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTTGGTGCACTTATGCCTGAATATGACCCTGCGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|352794299|gb|FQ481530.1|FQ481530
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTTGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|37183867|gb|CF603221.1|CF603221
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTTGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|30320659|gb|CD003921.1|CD003921
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTTGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|352798544|gb|FQ480569.1|FQ480569
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTTGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG
EST: gi|110377726|gb|EC942808.1|EC942808
EST:     GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATG                         AGGCTGGGCATGCATTGGTTGGTGCACTTATGCCTGAATATGACCCTGTGG
genomic: GAAAAATGCTGTGGTCTCAGACGAGAAGAAGAAATTAGTTGCCTATCATGgtacataaaa ... gaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttattgttttgggtgttttaactctttatgtgtttgcacttgaatttgcagAGGCTGGGCATGCATTGGTCGGTGCACTTATGCCTGAATATGACCCTGTGGCCAAGATATCCATCATTCCCCGTGGCCAAGCAGGTGGTCTTACCTTTTT
                   ttttaac  putative branch site (score: 2)
                   ttttaactctttat  TA-rich tract