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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctccacgcccatttgagtgtctcatgcatcctcttaactggaagtggtattgatgttgcttgttaacattcatattagaattctgaaccatgcattttggctgcttgtgtttcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCGATGCCCTTGTTGAAGCAGCATGGCCACTAGGGAGTGCCATTGATGCCGT

Basic information

species Vitis vinifera
transcript Vv05s0094g01630.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0094g01630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G04790.1 (Glycine max), 3'ss of exon 8
gtaagctccacgcccatttgagtgtctcatgcatcctcttaac-tggaagtggtattgatgttgcttgttaacattcatattagaattctgaaccatgcattttggctgcttgtgtttcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCGATGCCCTTGTTGAAGCAGCATGGCCACTAGGGAGTGCCATTGATGCCGT
                            | |  |  | | ||  | | | | |   | ||| || || |  | | ||  | |     | | | |         |   |||||   ||| |||| ||||  || |||| |||||||| ||||||||||||||| | |||||||| | ||||||||| ||||| ||||||||||| ||||| || |||||||| || ||
--------------------------gtaggtttaatttcaatgttggaatagctataatgatgtttctacaaagtctgagttatggtgttatcttcctgcactcattgcttcaatttgttgg-cagGTATATATCCATGGCAAGAGATTACATTGGTGAAGAAAGTTAAATACGACGATGCCCTGGTTGAGGCAGCATGGCCCCTAGGCAGCGCCATTGAAGCTGT

upper sequence: Vv05s0094g01630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G28460.1 (Glycine max), 3'ss of exon 4
gtaagctccacgcccatttgagtgtctcatgcatcctcttaac-tggaagtggtattgatgttgcttgttaacattcatattagaattctgaaccatgcattttggctgcttgtgtttcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCGATGCCCTTGTTGAAGCAGCATGGCCACTAGGGAGTGCCATTGATGCCGT
                            | |  |  | | ||  | | | | |   | |||    || |  | | ||  |||     | | | |         |   |||||   ||| |||| ||||| || |||| |||||||| ||||||||||||||| | |||||||| |  |||||||| ||||| ||||||||||| ||||| || |||||||| |||||
--------------------------gtaggtttaatttcaatgttggaatagctataatgacatttctacaaagtctgatttatggttttatcttcctgcactcattgcttcaatttgttgg-cagGCATATATCCATGGCAAGAGATTACATTGGTGAAGAAAGTTAAATACGATGATGCCCTGGTTGAGGCAGCATGGCCCCTAGGCAGCGCCATTGAAGCCGT

upper sequence: Vv05s0094g01630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G07690.1 (Glycine max), 3'ss of exon 8
gtaagctccacgcc--catttgagtgtctcatgcatcctc-ttaa------ctggaagtggtattgatgttgcttgttaacattcatattagaattctgaaccatgcattttggctgcttgtgtttcttgga-----------cagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCGATGCCCTTGTTGAAGCAGCATGGCCACTAGGGAGTGCCATTGATGCCGT
||| | |     |     || ||     |  ||| |  |  || |      ||| ||    | ||  | || || | | |          | |||  |||   |||  | ||  || |  ||  |  |||||           ||||||||||||| |||||| | |||||||| |||||| | |||||||||  ||||||  |||||||||| |||||||| ||||| || ||||| || || ||
gtaggttttgtactggtgttggaacagttactgcgtgataattgatgctttctgtaaaatcttttactttttctgggtcaatcattctccaaaatattgagtaatg-gtattatcttccagtactgattggatcatatgtttgcagGCCTAGATCCATGGCAACAGATTACATTAGTGAAGAAAGTTAAATATCACGATGCTTTTGTTGAAGCTGCATGGCCCCTAGGCAGCGCCATAGAAGCTGT

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|110361410|gb|EC924878.1|EC924878
EST:     CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTG                         GCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG
genomic: CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTGgtaagctcca ... tcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG
EST: gi|110357997|gb|EC921895.1|EC921895
EST:     CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTG                         GCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG
genomic: CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTGgtaagctcca ... tcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG
EST: gi|110418833|gb|EC985013.1|EC985013
EST:     CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTG                         GCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG
genomic: CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTGgtaagctcca ... tcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG
EST: gi|110358562|gb|EC922863.1|EC922863
EST:     CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTG                         GCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG
genomic: CTTATGCATGGATCTCGTCTATCAGTTCACATTGCTAATAGATGGATTTGgtaagctcca ... tcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcatattagaattctgaaccatgcattttggctgcttgtgtttcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCGATGCCCTTGTTGAAGCAGCATGGCCACTAGGGAGTGCCATTGATGCCGT
                                         tgtttctt  CT-rich tract
     atattagaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctccacgcccatttgagtgtctcatgcatcctcttaactggaagtggtattgatgttgcttgttaacattcatattagaattctgaaccatgcattttggctgcttgtgtttcttggacagGCCTAGATCCCTGGCAAGAAATTACATTGGTGAAGCAGGTTAAATATGGCGATGCCCTTGTTGAAGCAGCATGGCCACTAGGGAGTGCCATTGATGCCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC