Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catagatgacatacattttcttcttttcattatttggattttgaacattattaatgggttagtgatctgactttttggtttatcctgttaaatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCCTTTATCATTTGAAGTCGCATCTTCAG

Basic information

species Vitis vinifera
transcript Vv05s0029g00060.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|77578980|gb|DV218321.1|DV218321
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|349807865|gb|FQ402256.1|FQ402256
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71890565|gb|DT039620.1|DT039620
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|349812708|gb|FQ409867.1|FQ409867
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGATCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71873838|gb|DT022893.1|DT022893
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|110372532|gb|EC936708.1|EC936708
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71871639|gb|DT020694.1|DT020694
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|352786484|gb|FQ479093.1|FQ479093
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71890799|gb|DT039854.1|DT039854
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|110381320|gb|EC946647.1|EC946647
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|351039396|gb|FQ461263.1|FQ461263
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|349823439|gb|FQ423250.1|FQ423250
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71864683|gb|DT013738.1|DT013738
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71868560|gb|DT017615.1|DT017615
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|351046057|gb|FQ441440.1|FQ441440
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|161713162|gb|FC062502.1|FC062502
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71877393|gb|DT026448.1|DT026448
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|349820030|gb|FQ404752.1|FQ404752
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|33401619|gb|CF207246.1|CF207246
EST:     CTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: CTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|351046098|gb|FQ442476.1|FQ442476
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|351045231|gb|FQ451679.1|FQ451679
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAGAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|110427496|gb|EC993936.1|EC993936
EST:     TGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: TGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71871109|gb|DT020164.1|DT020164
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71871652|gb|DT020707.1|DT020707
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71867598|gb|DT016653.1|DT016653
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|351043504|gb|FQ428976.1|FQ428976
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|352790540|gb|FQ478180.1|FQ478180
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|351055909|gb|FQ453370.1|FQ453370
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|71873299|gb|DT022354.1|DT022354
EST:     GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: GCTCCACGAGCGATTTGTTGATGCTGTTACTCAACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
EST: gi|110358181|gb|EC922212.1|EC922212
EST:     ACTCGGTGGCCCCGATA                         AAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC
genomic: ACTCGGTGGCCCCGATAgtgcgttctc ... aatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattattaatgggttagtgatctgactttttggtttatcctgttaaatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCCTTTATCATTTGAAGTCGCATCTTCAG
                                        tgttaaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catagatgacatacattttcttcttttcattatttggattttgaacattattaatgggttagtgatctgactttttggtttatcctgttaaatatggtagAAGCAACTCCAAAGACCATCATGAGAACAATGGGGGTAAAAGGCCTCACCCTTTATCATTTGAAGTCGCATCTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - acataca