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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcgttagtggaaaccttgaatgacaggttttggaaagatatatattataaatttgtaatctattggatcattttgtcacaattcatgactctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTATTAATGGAAAAAAGCTCAGATGCCTTTTTACCTGAGATCTCCCCAAGTGG

Basic information

species Vitis vinifera
transcript Vv10s0116g01850.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|349813556|gb|FQ413790.1|FQ413790
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAGGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|349813525|gb|FQ413759.1|FQ413759
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|349809398|gb|FQ411896.1|FQ411896
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|349824836|gb|FQ414694.1|FQ414694
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|71857258|gb|DT006313.1|DT006313
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|349821376|gb|FQ410997.1|FQ410997
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|71858739|gb|DT007794.1|DT007794
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|37188012|gb|CF607363.1|CF607363
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|351057193|gb|FQ450900.1|FQ450900
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|71858685|gb|DT007740.1|DT007740
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|349815046|gb|FQ410269.1|FQ410269
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|349820123|gb|FQ404845.1|FQ404845
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
EST: gi|349808867|gb|FQ406717.1|FQ406717
EST:     GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCT                         GTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT
genomic: GTGTAGCAATTTCAGTGTGCTCAGTGTGTTTCTGTTGGTTCTGTTTCTCTgtgagtattc ... tctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttataaatttgtaatctattggatcattttgtcacaattcatgactctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTATTAATGGAAAAAAGCTCAGATGCCTTTTTACCTGAGATCTCCCCAAGTGG
     aatttgtaatctatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcgttagtggaaaccttgaatgacaggttttggaaagatatatattataaatttgtaatctattggatcattttgtcacaattcatgactctggtacagGTCTTCATGAATCCCATTGCAGCCTGCCAAGTTATATGAAAGGTTCTGTATTAATGGAAAAAAGCTCAGATGCCTTTTTACCTGAGATCTCCCCAAGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - -ggaaacc
- - - - - - - - - - - - - - - - ggaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgac