DreINT0065095 @ danRer10
Intron Retention
Gene
ENSDARG00000019808 | evpla
Description
envoplakin a [Source:ZFIN;Acc:ZDB-GENE-030829-19]
Coordinates
chr6:17974785-17975185:+
Coord C1 exon
chr6:17974785-17974963
Coord A exon
chr6:17974964-17975046
Coord C2 exon
chr6:17975047-17975185
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAAGTATGT
5' ss Score
6.97
3' ss Seq
CTGTCTTTTTTTAACACTAGAGC
3' ss Score
7.79
Exon sequences
Seq C1 exon
AAAACAACTGCAGCACTCCAGCAGCTGGAAAAACAGAGAGTTGCAGCCCAAAAGGAAATGGAACCTTTACTTTCAAAAGACTTAAATGGGCCAACTTCTTCTACTTTACTCCAAAACCTCAGTGATGCTAAAAACAAACAGGACAGTCTAGTTGCTCTGAACAGTCTCTACAAAAAGAA
Seq A exon
GTATGTAAACTTACAAAAGTGATTATAAAAGGTAATTAAAAACACATTTTAGATGTTGCAACTCTGTCTTTTTTTAACACTAG
Seq C2 exon
AGCAAATGCCTCTTTGGTTTTGGAGAGACAGCTTAGGCAGATGGACAACACTGTCTCAGGCTTTGAGAAACAGCTAAGTGAGGATGGTGCCATTCCTGACAAGCCTAACGCCATTCAGACACGTACACAGGAGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019808:ENSDART00000143263:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.700 A=NA C2=0.660
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(37.4=91.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGCCCAAAAGGAAATGGA
R:
TCTGCCTAAGCTGTCTCTCCA
Band lengths:
179-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]