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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtttagtaaagaattataataccttttggcaaaaaattcattcttcattgatctcacttgatgtttgtgtagttttatcatttgtatgggttttctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCGGACAGTGCTCTCTTATGTGCTGCTGTCAACCAACCTATTAGCGTGGGCA

Basic information

species Vitis vinifera
transcript Vv10s0003g01360.t01
intron # 3
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|110729443|gb|EE105401.1|EE105401
EST:     TCGGATTATCCCTACACATGCACTGATGGTAACCTGTA-CACAACCCAAG                         GAGAA-ACCAAAATCGTTTAGTATTGATGGCTA
genomic: TCGGATTATCCCTACACAGGCACTGATGGTA-CCTGTAACACAACC-AAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTT-AGTATTGATGGCTA
EST: gi|110728252|gb|EE103660.1|EE103660
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAA                         GAAGATACCAA-GTCGTTAGTATTGATGGCTACAA
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAA
EST: gi|110698587|gb|EE076253.1|EE076253
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|352787242|gb|FQ477862.1|FQ477862
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAAGATACCAAAGTTGTTAGTATTGATGGCTACCAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|110721961|gb|EE097772.1|EE097772
EST:     ATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCCAAG                         AAGAAT-CCAAAGTCCGT-AGTATTGATGGCTAC
genomic: ATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACC-AAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTC-GTTAGTATTGATGGCTAC
EST: gi|110722889|gb|EE099575.1|EE099575
EST:     AATCGGATTATCCCTACCC-GGCACTGATGGTACCTGTAACACAACCAAG                         GAAGAAAACAAAGTCCTTAGTATTGATGGCTACAAA
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAA
EST: gi|110724627|gb|EE100619.1|EE100619
EST:     ATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCCAAG                         GAG-ATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATC
genomic: ATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACC-AAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATC
EST: gi|110724911|gb|EE101155.1|EE101155
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAAGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGA
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGA
EST: gi|110721717|gb|EE099035.1|EE099035
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAANCAAG                         GAG-ATACCAA-GTCNTTAGTATTGATGGCTACAA
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAA
EST: gi|352773111|gb|FQ470726.1|FQ470726
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTCGTTAATATTGATGGC
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGC
EST: gi|110723202|gb|EE100248.1|EE100248
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|110689532|gb|EE065840.1|EE065840
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|110708863|gb|EE086888.1|EE086888
EST:     TCGGATTATCCCTACACANGCACTGATGGTACCCTGTA-CACAAACCAAG                         GAG-ATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAAT
genomic: TCGGATTATCCCTACACAGGCACTGATGGTACC-TGTAACACAA-CCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAAT
EST: gi|71884446|gb|DT033501.1|DT033501
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTTGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|110724508|gb|EE100395.1|EE100395
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAAGAATAC-AAAGTCGTTAGTATTGATGGCTACAA-GATGTC
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGA-TACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTC
EST: gi|161706574|gb|FC057192.1|FC057192
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTTGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|37185025|gb|CF604378.1|CF604378
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTTGTTAGTATTGATGGCTAC
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTAC
EST: gi|110709357|gb|EE084747.1|EE084747
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|110726274|gb|EE101910.1|EE101910
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|110373052|gb|EC937259.1|EC937259
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTTGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|161711615|gb|FC059531.1|FC059531
EST:     AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTTGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
EST: gi|110687163|gb|EE064331.1|EE064331
EST:     AATCGGATTATCCCT--ACAGGCACTGATGGTACCTGTAACACAACCAAG                         GAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG
genomic: AATCGGATTATCCCTACACAGGCACTGATGGTACCTGTAACACAACCAAGgtctgtttag ... ctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctcacttgatgtttgtgtagttttatcatttgtatgggttttctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCGGACAGTGCTCTCTTATGTGCTGCTGTCAACCAACCTATTAGCGTGGGCA
                                         ttttcttt  CT-rich tract
                       ttttatcatttgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgtttagtaaagaattataataccttttggcaaaaaattcattcttcattgatctcacttgatgtttgtgtagttttatcatttgtatgggttttctttgatcagGAGGATACCAAAGTCGTTAGTATTGATGGCTACAAAGATGTCGATGAATCGGACAGTGCTCTCTTATGTGCTGCTGTCAACCAACCTATTAGCGTGGGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT