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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGAGCCTCCTCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgccaatccattttcatatgtctcttatggttttgaatagattatgtgatgcatagagatatatattatttttttcag

Basic information

species Vitis vinifera
transcript Vv16s0022g02110.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA10G38680.1 (Glycine max), 5'ss of exon 9
TGTGAGCCTCCTCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgccaatccattttcatatgtctcttatggttttg----aatagattatgtgatgcatagagatat----atattattttt-ttcag
||||| || || |||||||| ||||| || |||||||| |||||||||||||||||||||||||  |    |    ||   ||  |  |  |||||  |||    | | || |    |||  |  |  |||      | || ||||| |||||
TGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACAGGAAGAGCAGgtatttctacaggatttgctattggcttactatgggattgtgatattggagttatcgatttaaggttatactgtggttttgtttttattcag

upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA20G29060.1 (Glycine max), 5'ss of exon 9
TGTGAGCCTCCTCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcc---aatccattttcatatgtctcttatggttttgaatagatt-atgtgatgcatagagatatatattattttt-ttcag
||||| || || || ||||| ||||| || |||||||| |||||||||||||||||||||||||  |       ||    | |    |  || || || | ||| |   ||| || | | |  || |      | |  ||||| |||||
TGTGAACCCCCACGGGATGTAGAAGCCTATATCCATCGTTCTGGACGCACAGGAAGAGCAGgtatctttacaggatttgctattggtttactattgtgatattggagttattgattttaaggttatactgtggtttggtttttattcag
















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|351046770|gb|FQ454380.1|FQ454380
EST:     TCGAGATGTTGAAGCCTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|349818664|gb|FQ403498.1|FQ403498
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351040229|gb|FQ425315.1|FQ425315
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|352790432|gb|FQ478072.1|FQ478072
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351048608|gb|FQ448882.1|FQ448882
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351033398|gb|FQ462049.1|FQ462049
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|161720145|gb|FC066753.1|FC066753
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|161709071|gb|FC058368.1|FC058368
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351039800|gb|FQ464838.1|FQ464838
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|349809274|gb|FQ399048.1|FQ399048
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|352798464|gb|FQ480489.1|FQ480489
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|110391302|gb|EC956267.1|EC956267
EST:     TGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|349812243|gb|FQ411838.1|FQ411838
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351056075|gb|FQ453536.1|FQ453536
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|71870308|gb|DT019363.1|DT019363
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|161720948|gb|FC070676.1|FC070676
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351055609|gb|FQ452074.1|FQ452074
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|30253071|gb|CB970622.1|CB970622
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351012917|gb|FQ430480.1|FQ430480
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|110690637|gb|EE067971.1|EE067971
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351052845|gb|FQ456573.1|FQ456573
EST:     TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|351035558|gb|FQ463403.1|FQ463403
EST:     TCGAGATGTTGAAGCTTACACCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
EST: gi|349807331|gb|FQ401323.1|FQ401323
EST:     TCGAGATGTTGAAGCTTGCATCCATCGATCTGGACGCACAGGAAGAGCAG                         GCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT
genomic: TCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgcca ... tttttttcagGCAATAGTGGGGTTGCTGTAATGCTTTTTGATCCAAGAAGGTCAAATATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGAGCCTCCTCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAGgtaaatgccaatccattttcatatgtctcttatggttttgaatagattatgtgatgcatagagatatatattatttttttcag

- - - - - -  GAGATG
- - - - - - - - -  TTGAAG
- - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG