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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGATATCTCTGCAATAGGCATTACAAACTTCACGGGGCCTGAGGGACAATTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttctttgctggaacatcatgtccttatcctctgtttctatatgaaagatatatattgaatgatggtgatctatttcatcttctcttttgtttg...

Basic information

species Vitis vinifera
transcript Vv01s0011g05370.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA05G34790.1 (Glycine max), 5'ss of exon 7
TGGATATCTCTGCAATAGGCATTACAAACTTCACGGGGCCTGAGGGACAATTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttctttgctggaacatcatgtccttatcctctgtttctatatgaaagatatatattgaatgatggtgatctatttcatcttctctt-ttgtttg-----
|||||||| |  ||| |||  |||||| ||| || || ||||| |||| ||||||||| ||||||||||||||||||  ||||||| | |||||||||||||||| ||  ||| |   ||| ||||   ||||  |||||  |||||   ||  |  | |||  ||      | || ||| || | |  |  |     ||      
TGGATATCACCACAACAGGTGTTACAAGCTTTACAGGCCCTGAAGGACCATTTGATGTTGAGGTTTTTGATTCAGCAAGTGATTATATAAAATTGATGAAgtaagattcttttac---aacttcat---cttacactctgcatctatgcaaagaagttttatgcaagtggatttatttatgtcgtgtcatgatgccaattaacctg

upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA08G04890.1 (Glycine max), 5'ss of exon 7
TGGATATCTCTGCAATAGGCATTACAAACTTCACGGGGCCTGAGGGACAATTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttctttgctggaacatcatgtccttatcctctgtttctatatgaaagatatatattgaatgatggtgatctatttcat-cttctcttttgtttg-----
|||||||  |  ||| |||  |||||| ||| || || || |  |||| ||||||||| ||||||||||||||||||  ||||||| | |||||||||||||||| ||| ||| |   ||| ||||   |||| ||||||  |||||   ||  || | |||  ||      | || ||| |||| |   | |     ||      
TGGATATTACCTCAACAGGTGTTACAAGCTTTACAGGCCCCGGAGGACCATTTGATGTTGAGGTTTTTGATTCAGCAAGTGATTATATAAAATTGATGAAgtaagatttttttac---aacttcat---cttaccctctgcatctatgcaaagaatttttatgcaagtggatttatttatgtcatgcaattgtgccaattaacctg
















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|30132705|gb|CB918044.1|CB918044
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|30305224|gb|CB982018.1|CB982018
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|351015349|gb|FQ445633.1|FQ445633
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGGTGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCCGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|32270931|gb|CD720090.1|CD720090
EST:     TTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTNGAA-TTGATGAA                         GTCGATTTTTGATTTCCNATCTATCCAAAAGCTGCTCTCATCACNCAAA-T
genomic: TTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGT-GAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCAC-CAAAAT
EST: gi|30125147|gb|CB910486.1|CB910486
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|30136409|gb|CB921747.1|CB921747
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|77583444|gb|DV220763.1|DV220763
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTTCCA-TCTATCCAAAA
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTT-CCAATCTATCCAAAA
EST: gi|161715336|gb|FC066459.1|FC066459
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCT
EST: gi|30305289|gb|CB982083.1|CB982083
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|30125386|gb|CB910725.1|CB910725
EST:     GGTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|349810189|gb|FQ401635.1|FQ401635
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|349818554|gb|FQ403189.1|FQ403189
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|349827300|gb|FQ421573.1|FQ421573
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|349810979|gb|FQ405967.1|FQ405967
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
EST: gi|349810186|gb|FQ401632.1|FQ401632
EST:     TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAA                         GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT
genomic: TTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttc ... tattttccagGTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGATATCTCTGCAATAGGCATTACAAACTTCACGGGGCCTGAGGGACAATTTGATGTCGAGGTTTTTGATTCAGCATTTGATTATGTGAAATTGATGAAgtaagctttctttgctggaacatcatgtccttatcctctgtttctatatgaaagatatatattgaatgatggtgatctatttcatcttctcttttgtttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagata