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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaaaatgtttgcttaagtttcaattctaatgtatattgtttttggattgcaaccaatctttattttcatgtggaagtaactccttttcttgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG

Basic information

species Vitis vinifera
transcript Vv01s0146g00310.t01
intron # 11
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|351034261|gb|FQ448058.1|FQ448058
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|351014802|gb|FQ438002.1|FQ438002
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|77587570|gb|DV222950.1|DV222950
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|77577175|gb|DV217284.1|DV217284
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110378632|gb|EC943772.1|EC943772
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110391037|gb|EC955989.1|EC955989
EST:     AAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGAGGGAATCAGTGCTGAG
genomic: AAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110371230|gb|EC935083.1|EC935083
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110713083|gb|EE088693.1|EE088693
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110687324|gb|EE064645.1|EE064645
EST:     TGTATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110387837|gb|EC952535.1|EC952535
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110428620|gb|EC995097.1|EC995097
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110718877|gb|EE096214.1|EE096214
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
EST: gi|110385791|gb|EC950347.1|EC950347
EST:     GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAG                         GCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
genomic: GGGATGTGACTATCACAGCTTTCTCAAAAATGGTGGGCTTTGCACTCAAGgtttgtcaat ... tgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattgcaaccaatctttattttcatgtggaagtaactccttttcttgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG
                                taactccttttctt  CT-rich tract
          aatctttattttcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaaaatgtttgcttaagtttcaattctaatgtatattgtttttggattgcaaccaatctttattttcatgtggaagtaactccttttcttgatgttcagGCTGCTGATATTCTTGCAAAGGATGGAATCAGTGCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - tgtttgc
- - - - - - - - - - - - - - - - - - - - - -tggattg
- - - - - - - - - - - - - - - - - - - - - - - - - caaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgg