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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtgtgaaaccacctagcactttttatctttctattatatctggcaattaccataaggcaaccagatcaaaactgatgcttttttaactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGCATCAGTTGAAGAGATTGCCAA

Basic information

species Vitis vinifera
transcript Vv18s0001g03150.t01
intron # 5
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|27579621|gb|CB002316.1|CB002316
EST:     GAGCCAATAGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|110371933|gb|EC936069.1|EC936069
EST:     GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|71873170|gb|DT022225.1|DT022225
EST:     GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|110709129|gb|EE084317.1|EE084317
EST:     GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|110382676|gb|EC946993.1|EC946993
EST:     GAGCCAATAGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|46910084|gb|CN545459.1|CN545459
EST:     GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|27580878|gb|CB003573.1|CB003573
EST:     GAGCCAATAGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|83275290|gb|DV938441.1|DV938441
EST:     GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|30321569|gb|CD004831.1|CD004831
EST:     GAGCCAATAGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|27580470|gb|CB003165.1|CB003165
EST:     GAGCCAATAGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
EST: gi|27581639|gb|CB004334.1|CB004334
EST:     GAGCCAATAGCTACTACTCCTGTCATCTCTGGAGTAATGGT                         ATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC
genomic: GAGCCAATGGCTACTACTCCTGTCATCTCTGGAGTAATGGTgtaagtgtgt ... aactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggcaattaccataaggcaaccagatcaaaactgatgcttttttaactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGCATCAGTTGAAGAGATTGCCAA
                                         ttttaac  putative branch site (score: 2)
                                      ctttttta  CT-rich tract
                                       ttttttaactgttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgtgtgaaaccacctagcactttttatctttctattatatctggcaattaccataaggcaaccagatcaaaactgatgcttttttaactgtttagATACATAGCATCCCCAGACAAGAAACTTAATCGTAACTACCTTGGCCCTGCATCAGTTGAAGAGATTGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA