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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagcatttctctgtagcaagaaacttagtttacataaaagttgtcagaaagtatttcatgtccagtactacaacttggtctcataaatgcgtctgccagaattccacttgattgttgaatagctgattcatgctcccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATCAAGCCCGACAACTTCCTCATGGGTCTGGGTCGTAAAGCAAATCAG

Basic information

species Vitis vinifera
transcript Vv11s0016g03460.t01
intron # 4
splice site 3'
intron type U2

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|71861603|gb|DT010658.1|DT010658
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71859743|gb|DT008798.1|DT008798
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71857582|gb|DT006637.1|DT006637
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71859339|gb|DT008394.1|DT008394
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71864348|gb|DT013403.1|DT013403
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71859319|gb|DT008374.1|DT008374
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71864880|gb|DT013935.1|DT013935
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|32250210|gb|CD716029.1|CD716029
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71858976|gb|DT008031.1|DT008031
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71860850|gb|DT009905.1|DT009905
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71863788|gb|DT012843.1|DT012843
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71863133|gb|DT012188.1|DT012188
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|110373710|gb|EC938001.1|EC938001
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71863496|gb|DT012551.1|DT012551
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71873064|gb|DT022119.1|DT022119
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|294965830|gb|GW837313.1|GW837313
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|110702369|gb|EE081005.1|EE081005
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|352781444|gb|FQ468288.1|FQ468288
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|71855998|gb|DT005053.1|DT005053
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGT
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGT
EST: gi|71861658|gb|DT010713.1|DT010713
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|27580104|gb|CB002799.1|CB002799
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|352768395|gb|FQ469571.1|FQ469571
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
EST: gi|110710321|gb|EE086552.1|EE086552
EST:     GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATG                         ATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC
genomic: GTGGGAGGAAGTTCTCCTTGAAGACAGTCTTAATGTTGGCTGATCAAATGgtaaagcatt ... ccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctgccagaattccacttgattgttgaatagctgattcatgctcccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATCAAGCCCGACAACTTCCTCATGGGTCTGGGTCGTAAAGCAAATCAG
                              agctgat  putative branch site (score: 4)
                                    ttcatgctcccttttt  CT-rich tract
                                               tttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagcatttctctgtagcaagaaacttagtttacataaaagttgtcagaaagtatttcatgtccagtactacaacttggtctcataaatgcgtctgccagaattccacttgattgttgaatagctgattcatgctcccttttttagATTACAAGAATCGAATATGTGCACTCTAAAGGATTTTTACATAGAGATATCAAGCCCGACAACTTCCTCATGGGTCTGGGTCGTAAAGCAAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA