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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATGAATATTACCAGAAACCACAAGAAGTGGTTGTCACCATATTTGCAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttcatctcaactcgatacttctcatttttattctgtttcatagtgactttgtgttttgttatttagatcttcttcgtagacattgatttgatgattatgctaattcttctttttggttgctttgcag

Basic information

species Vitis vinifera
transcript Vv16s0050g01510.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g01510.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os01g43540.1 (Oryza sativa), 5'ss of exon 5
GCATGAATATTACCAGAAACCACAAGAAGTGGTTGTCACCATATTTGCAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttcatctcaactcgatacttctcatttttattctgtttcatagtgactttgtgttttgttatttagatcttcttcgtagacattgatttgatgattatgctaattcttctttttggttgctttgcag
||| || |  ||| | |   |   |||||| ||  | || || |||||||| || || || | ||| |||||||||||||| |||||||||||||| || ||   | |  |||     |  | |  ||  |   | | |||  || |     |||| |   | ||| ||   | | |  |||                                                
GCACGACTTCTACAACAGTGCTACAGAAGTTGTATTGACAATTTTTGCAAAGGGTGTTCCTGCTGAGAATGTTGTTGTTGATTTTGGTGAACAAATGgtgtgtaccttaacaataaattgttgcaaatcatc--tatatttactaatt-tactgtgctcactaattaagccttccattttag------------------------------------------------

upper sequence: Vv16s0050g01510.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA10G37440.1 (Glycine max), 5'ss of exon 6
GCATGAATATTACCAGAAACCACAAGAAGTGGTTGTCACCATATTTGCAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttcatctcaact----cgatacttctcatttttattct---gtttcat-agtgactttgtgttttgttatt-tagatcttcttcgtagacattgatttgatgattatgctaattcttctttttggttgctttgcag
||||||||  |||||||||||  | ||| ||||| | |||||||||||||| ||| | |||   || |   ||  |||||||||||||||||||||||||||  |||  | || |      ||| ||   |  || ||  |       ||| ||| ||  |   ||   | ||  |  ||  | |||  |||       ||  |  || |  |||||||| ||| || |    ||| ||
GCATGAATTCTACCAGAAACCTGATGAAATGGTTATTACCATATTTGCAAAGGGCATTCCACGAGACAGCATTACTGTTGACTTTGGTGAACAAATAgtatgactcacattaattatcataatatttagtaaattcatgttacaaccccatcagttacagtcccttacatcatgatgaataatattctaagattgctccttcctttttttcttaattcttttttatgatg---ttgtag
















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|110712988|gb|EE088514.1|EE088514
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAAC-T
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|71859342|gb|DT008397.1|DT008397
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110733197|gb|EE109180.1|EE109180
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|29782866|gb|CB348559.2|CB348559
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|29783203|gb|CB349232.2|CB349232
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110694395|gb|EE071465.1|EE071465
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110421576|gb|EC987874.1|EC987874
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110686508|gb|EE064228.1|EE064228
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|32271506|gb|CD720665.1|CD720665
EST:     CAAAAGGTGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATACCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|46917631|gb|CN546960.1|CN546960
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110729024|gb|EE105164.1|EE105164
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|28969441|gb|CB348474.1|CB348474
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110364112|gb|EC927758.1|EC927758
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGACCAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|77581747|gb|DV219826.1|DV219826
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110687406|gb|EE064790.1|EE064790
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110693950|gb|EE070628.1|EE070628
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110711614|gb|EE088295.1|EE088295
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAA-TA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|32249238|gb|CD715057.1|CD715057
EST:     CAAAAGGTGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATACCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110732977|gb|EE108734.1|EE108734
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAA-AAATA                         CTGAGTGTCAGCATTGATGTTTCTGGTGATNGT-GCATATCATTTTCAACC
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGAT-GTTGCATATCATTTTCAACC
EST: gi|110723197|gb|EE100235.1|EE100235
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|161718657|gb|FC067946.1|FC067946
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110383861|gb|EC948264.1|EC948264
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|110426741|gb|EC993160.1|EC993160
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCT
EST: gi|71873209|gb|DT022264.1|DT022264
EST:     CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATA                         CTGAGTGTCACCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACCC
genomic: CAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttca ... tgctttgcagCTGAGTGTCAGCATTGATGTTCCTGGTGATGTTGCATATCATTTTCAACC-

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATGAATATTACCAGAAACCACAAGAAGTGGTTGTCACCATATTTGCAAAAGGCGTACCAGATGAAAATGTTGTTGTTGACTTTGGTGAACAAATAgtatggttcatctcaactcgatacttctcatttttattctgtttcatagtgactttgtgttttgttatttagatcttcttcgtagacattgatttgatgattatgctaattcttctttttggttgctttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG