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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaaccactgctcttttcctttccaccctgttcacgcttagaatctgttcacaccttcaaactaactctgccatcttatttctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCCACTACGGAACTATGGACCAGCACACAAGAGCTGCTTTCTTTCTCCTCCT

Basic information

species Vitis vinifera
transcript Vv04s0044g01290.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G15870.1 (Glycine max), 3'ss of exon 11
---------------gtaataaaccactgctcttttcctttccaccctgttcacgcttagaatc-tgttcacacc-ttcaaactaactctgccatc-ttatttctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCCACTACGGAACTATGGACCAGCACACAAGAGCTGCTTTCTTTCTCCTCCT
                |     |  |  ||    ||   |  | |  |||  |||||  ||||| | || |  |       ||| ||| ||| ||  | | ||   | | ||| || |     |||| |||||||||||| || |||||||| |||||||| ||  | ||  | ||||| ||||||||||||||||| || ||||||||||||
gtaaaatatctgaccttctcttattaaggcatggttatgtatctctatgtatacgct--gaatcatttttatgctacctggactgact-tgctattgtaacttgctttttcagAGATAACACAAGAATGATCACATCTTTACCAGTATCTCCCTGTTCAAGTCCTTTGCGACAGTATGGGCCAGCACACAAGAGCTGTTTCCTTTCTCCTCCT
















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|352782281|gb|FQ470183.1|FQ470183
EST:     GGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: GGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|26257410|gb|CA808473.1|CA808473
EST:     TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|26257306|gb|CA808369.1|CA808369
EST:     TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|26258196|gb|CA809259.1|CA809259
EST:     TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|110360965|gb|EC924410.1|EC924410
EST:     TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|110361379|gb|EC924846.1|EC924846
EST:     TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|352769770|gb|FQ468698.1|FQ468698
EST:     TGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|27583422|gb|CB006117.1|CB006117
EST:     TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
EST: gi|110732912|gb|EE108613.1|EE108613
EST:     TATGTGACAAAACCAGTGGGCACGATTTCGAGAGCTGCAAAGAACTCAAG                         GGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC
genomic: TATGTGACAAAACCAGTGGGCACGGTTTCGAGAGCTGCAAAGAACTCAAGgtaataaacc ... ctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttagaatctgttcacaccttcaaactaactctgccatcttatttctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCCACTACGGAACTATGGACCAGCACACAAGAGCTGCTTTCTTTCTCCTCCT
                       aactaac  putative branch site (score: 1)
                                     tcttatttct  putative PPT
                                    atcttattt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataaaccactgctcttttcctttccaccctgttcacgcttagaatctgttcacaccttcaaactaactctgccatcttatttctgtatgcagGGACAGTGTGAGAACGATCACATCTTTGCCTGTATCTCCATGTTCAAGCCCACTACGGAACTATGGACCAGCACACAAGAGCTGCTTTCTTTCTCCTCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC