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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttgtgatgatactttttctctgcagcagaaatctacaattgtctggtaattctctgatttgattggataaaaatgttgtcttttttttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAGCACTCCATCGAAGAACTTGATGGATCTCAGCAACTGTAATCAGGACTCT

Basic information

species Vitis vinifera
transcript Vv17s0000g07230.t01
intron # 34
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|30323322|gb|CD006584.1|CD006584
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|27581527|gb|CB004222.1|CB004222
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|87586738|gb|DY474892.1|DY474892
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|27579766|gb|CB002461.1|CB002461
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|27581266|gb|CB003961.1|CB003961
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|110360462|gb|EC923582.1|EC923582
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|30323293|gb|CD006555.1|CD006555
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|83277442|gb|DV941450.1|DV941450
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|27755234|gb|CB035989.1|CB035989
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|46910839|gb|CN546214.1|CN546214
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTAGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|110689535|gb|EE065843.1|EE065843
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
EST: gi|30322055|gb|CD005317.1|CD005317
EST:     GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAG                         GGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG
genomic: GCTTAGTCACCCACATGAAGTTACCATCATCAACTCCAACCAATCTCCAGgtactttcac ... ttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctggtaattctctgatttgattggataaaaatgttgtcttttttttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAGCACTCCATCGAAGAACTTGATGGATCTCAGCAACTGTAATCAGGACTCT
                                tgttgtcttttttttt  CT-rich tract
                         ataaaaatgttgtctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcttgtgatgatactttttctctgcagcagaaatctacaattgtctggtaattctctgatttgattggataaaaatgttgtcttttttttttttccagGGAATGAAGCTGATTTTAGTTTCAGATTGTTATATTGGGTTTGAACAAGAGCACTCCATCGAAGAACTTGATGGATCTCAGCAACTGTAATCAGGACTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - tctgcag
- - - - - - - - - - - - - - - agaaatc
- - - - - - - - - - - - - - - - - - - - - -tgtctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaaaa