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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaaattgtaaaaatatagatcgtccgattctctagagtgggccactctcatgttgcgaaccgttagatctaaaaagttttctgatgggattgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGCAGATATCTGGACGCATTCGGAGGGATTGCTACGGTGAACTGCGGCCACT

Basic information

species Vitis vinifera
transcript Vv08s0058g00930.t01
intron # 1
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|352794561|gb|FQ475059.1|FQ475059
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|71877180|gb|DT026235.1|DT026235
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|33407556|gb|CF213183.1|CF213183
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|352795138|gb|FQ477248.1|FQ477248
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|71871037|gb|DT020092.1|DT020092
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|33409685|gb|CF215312.1|CF215312
EST:     TATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: TATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|161712512|gb|FC061817.1|FC061817
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|161721151|gb|FC071026.1|FC071026
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
EST: gi|110698597|gb|EE076279.1|EE076279
EST:     AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCC                         GTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC
genomic: AGCGGAAGCAATATCTCAGCCCTTCCATATTCTGCTTCTATAATCAACCCgtgagtccta ... attgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actctcatgttgcgaaccgttagatctaaaaagttttctgatgggattgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGCAGATATCTGGACGCATTCGGAGGGATTGCTACGGTGAACTGCGGCCACT
                                   ttctgat  putative branch site (score: 3)
                       atctaaaaagtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaaaattgtaaaaatatagatcgtccgattctctagagtgggccactctcatgttgcgaaccgttagatctaaaaagttttctgatgggattgggacagGTGAACATAGTGGACGGGAAGATGCAGTACTTATTTGATGAGAAGGGGCGCAGATATCTGGACGCATTCGGAGGGATTGCTACGGTGAACTGCGGCCACT

aaaaaat
- - - - - aaaaata
- - - - - - - - - - - - - - - - - - gagtggg
- - - - - - - - - - - - - - - - - - - - - - - - - -atgttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatggg